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"	4758
palomino7	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4493
merida1	macOS 12.7.5 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4522
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4471
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: 1.10.1

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.10.1.tar.gz

StartedAt: 2024-08-12 01:04:27 -0400 (Mon, 12 Aug 2024)

EndedAt: 2024-08-12 01:07:10 -0400 (Mon, 12 Aug 2024)

EllapsedTime: 163.5 seconds

RetCode: 0

Status: OK

CheckDir: biodbHmdb.Rcheck

Warnings: 0

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_1.10.1.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 ‘1.10.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
HmdbMetabolitesConn 3.910  1.226   5.991
hmdbToSqlite        4.599  0.084   6.683
* 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 NOTE
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
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
*** 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 [2024-08-12 01:06:17.471][biodb::testContext]
biodb.INFO [2024-08-12 01:06:17.477][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:17.480][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-08-12 01:06:17.483][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:17.485][biodb::testContext]
biodb.INFO [2024-08-12 01:06:17.489][biodb::testThat]
biodb.INFO [2024-08-12 01:06:17.492][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-08-12 01:06:17.494][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:17.497][biodb::testThat]
biodb.INFO [2024-08-12 01:06:17.753][biodb::testContext]
biodb.INFO [2024-08-12 01:06:17.755][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:17.758][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-08-12 01:06:17.760][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:17.763][biodb::testContext]
biodb.INFO [2024-08-12 01:06:17.784][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:17.789][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:17.807][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:17.810][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-12 01:06:17.814][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.824][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-12 01:06:17.890][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.901][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-12 01:06:17.903][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.913][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-12 01:06:17.916][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-12 01:06:17.919][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-12 01:06:17.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.928][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-12 01:06:17.932][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-12 01:06:17.935][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.946][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-12 01:06:17.949][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-12 01:06:17.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.959][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-12 01:06:17.962][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-12 01:06:17.965][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-12 01:06:17.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:17.974][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-12 01:06:17.979][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:17.986][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[2024-08-12 01:06:17.989][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-12 01:06:17.992][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-12 01:06:17.995][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-12 01:06:17.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:17.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.004][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:18.007][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-12 01:06:18.011][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-12 01:06:18.015][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-12 01:06:18.017][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-12 01:06:18.019][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-12 01:06:18.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.029][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-12 01:06:18.032][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-12 01:06:18.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.044][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-12 01:06:18.047][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-12 01:06:18.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.057][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-12 01:06:18.060][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-12 01:06:18.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.070][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-12 01:06:18.073][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-12 01:06:18.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.083][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-12 01:06:18.085][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-12 01:06:18.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.096][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:18.100][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-12 01:06:18.122][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-12 01:06:18.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.134][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-12 01:06:18.137][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-12 01:06:18.139][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-12 01:06:18.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.154][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-12 01:06:18.249][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.302][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-08-12 01:06:18.304][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.307][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:18.310][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.312][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.315][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.317][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.320][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:18.322][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:18.325][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.327][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-12 01:06:18.330][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:18.333][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.335][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.338][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:18.338][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:18.338][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:18.338][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:18.338][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:18.340][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:18.343][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.345][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:18.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.363][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.365][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.367][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:18.370][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:18.372][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.374][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.377][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-12 01:06:18.382][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.384][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:18.387][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.392][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:18.394][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.397][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.399][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.401][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.404][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:18.407][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:18.410][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.413][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-12 01:06:18.416][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:18.419][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.422][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.426][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:18.426][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:18.426][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:18.426][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:18.426][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:18.429][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:18.431][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.435][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.437][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:18.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.444][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.448][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:18.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:18.456][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.459][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.462][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-12 01:06:18.467][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.470][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-08-12 01:06:18.472][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:18.478][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.481][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.483][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.486][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.488][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:18.491][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:18.494][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.496][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-12 01:06:18.499][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:18.503][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.508][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.512][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:18.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:18.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.528][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.531][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:18.534][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:18.537][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.539][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.542][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-12 01:06:18.547][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.550][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:18.552][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.556][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:18.559][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.561][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.564][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.567][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.570][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:18.572][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:18.575][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.578][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-12 01:06:18.581][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:18.583][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.586][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:18.590][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.592][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:18.595][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.600][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:18.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:18.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:18.607][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:18.612][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.615][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:18.618][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:18.620][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:18.623][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:18.631][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:18.634][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.759][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[2024-08-12 01:06:18.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.803][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[2024-08-12 01:06:18.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:18.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:18.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:18.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:18.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:18.860][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-12 01:06:18.877][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-12 01:06:18.881][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-12 01:06:18.885][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-12 01:06:18.888][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-12 01:06:18.892][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:18.896][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:18.899][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:18.902][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-12 01:06:18.906][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:18.909][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:18.913][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-12 01:06:18.917][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:18.922][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:18.925][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-12 01:06:18.929][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:18.934][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-12 01:06:18.938][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-12 01:06:18.941][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-12 01:06:18.945][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-12 01:06:18.949][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-12 01:06:18.953][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-12 01:06:18.956][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-12 01:06:18.960][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-12 01:06:18.963][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-12 01:06:18.969][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-12 01:06:18.972][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-12 01:06:18.976][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-12 01:06:18.980][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-12 01:06:18.985][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-12 01:06:18.989][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-12 01:06:18.992][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-12 01:06:18.996][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-12 01:06:18.999][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-12 01:06:19.003][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-12 01:06:19.007][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-12 01:06:19.011][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-12 01:06:19.015][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-12 01:06:19.018][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-12 01:06:19.023][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-12 01:06:19.026][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-12 01:06:19.030][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-12 01:06:19.034][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-12 01:06:19.038][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-12 01:06:19.042][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-12 01:06:19.046][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-12 01:06:19.050][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-12 01:06:19.054][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-12 01:06:19.059][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-12 01:06:19.062][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-12 01:06:19.066][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-12 01:06:19.070][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-12 01:06:19.073][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-12 01:06:19.077][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-12 01:06:19.082][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-12 01:06:19.085][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-12 01:06:19.089][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-12 01:06:19.093][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-12 01:06:19.096][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-12 01:06:19.099][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-12 01:06:19.105][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-12 01:06:19.109][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-12 01:06:19.112][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-12 01:06:19.119][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-12 01:06:19.122][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-12 01:06:19.127][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-12 01:06:19.131][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-12 01:06:19.136][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-12 01:06:19.141][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-12 01:06:19.145][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-12 01:06:19.149][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-12 01:06:19.154][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-12 01:06:19.158][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-12 01:06:19.161][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-12 01:06:19.166][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-12 01:06:19.169][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-12 01:06:19.173][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-12 01:06:19.177][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-12 01:06:19.180][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-12 01:06:19.184][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-12 01:06:19.188][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-12 01:06:19.191][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-12 01:06:19.197][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-12 01:06:19.214][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-12 01:06:19.217][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:19.224][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:19.226][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.232][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.264][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[2024-08-12 01:06:19.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.314][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[2024-08-12 01:06:19.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.390][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[2024-08-12 01:06:19.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.424][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[2024-08-12 01:06:19.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.443][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[2024-08-12 01:06:19.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.571][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[2024-08-12 01:06:19.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:19.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:19.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:19.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:19.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:19.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:19.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:19.595][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:19.625][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:19.630][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:19.634][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-12 01:06:19.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:19.640][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:19.642][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:19.646][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-12 01:06:19.648][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:19.650][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:19.653][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-12 01:06:19.655][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:19.661][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:19.664][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-12 01:06:19.666][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-12 01:06:19.669][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-12 01:06:19.674][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:19.676][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:19.676][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-12 01:06:19.676][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-12 01:06:19.679][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-12 01:06:19.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:19.684][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:19.686][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:19.689][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:19.692][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:19.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:19.700][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:19.700][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-12 01:06:19.702][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:19.705][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:19.708][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:19.711][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:19.730][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-12 01:06:19.734][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:19.738][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:19.743][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:19.747][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:19.804][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:19.807][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-12 01:06:19.816][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:19.826][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:19.835][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:19.838][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:19.841][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-12 01:06:19.845][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-12 01:06:19.848][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:19.848][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-12 01:06:19.850][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:19.852][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:19.854][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-12 01:06:19.858][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-12 01:06:19.860][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:19.925][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:19.928][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:19.931][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:19.935][private$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[2024-08-12 01:06:19.940][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:19.943][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-12 01:06:19.961][biodb::testThat]
biodb.INFO [2024-08-12 01:06:19.965][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-08-12 01:06:19.967][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:19.969][biodb::testThat]
biodb.TRACE[2024-08-12 01:06:19.978][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[2024-08-12 01:06:19.984][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:19.990][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:20.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:20.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:20.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:20.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:20.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:20.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:20.030][FUN] Functions in observer BiodbConfig: [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[2024-08-12 01:06:20.054][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:20.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:20.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.062][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:20.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.118][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:20.121][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:20.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.126][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.204][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:20.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:20.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.217][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.219][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.225][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.228][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.239][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.242][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.249][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.252][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.274][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.290][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.294][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.298][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.313][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:20.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:20.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.321][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.325][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:20.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:20.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.337][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:20.339][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:20.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.357][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:20.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:20.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.375][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.377][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.382][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.396][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.399][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.405][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.408][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.420][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:20.423][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:20.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.429][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:20.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:20.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:20.448][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:20.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.453][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:20.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:20.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.472][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:20.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:20.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.482][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:20.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:20.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.500][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:20.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:20.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.509][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:20.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:20.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.523][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:20.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:20.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.530][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:20.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:20.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.546][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:20.550][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:20.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.554][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.558][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:20.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.570][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:20.573][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:20.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.579][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:20.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:20.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.595][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:20.597][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.603][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:20.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:20.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:20.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:20.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:20.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:20.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.765][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.784][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.796][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.817][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:20.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:20.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.900][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.911][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:20.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:20.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:20.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:20.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:21.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:21.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:21.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:21.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:21.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:21.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:21.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:21.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:21.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.051][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:21.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:21.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:21.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:21.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:21.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:21.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:21.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:21.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.134][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:21.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:21.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.223][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.243][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:21.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.254][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.275][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:21.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:21.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:21.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:21.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:21.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.316][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:21.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.355][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:21.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:21.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:21.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:21.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.473][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.484][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:21.589][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-12 01:06:21.595][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:21.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:21.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.604][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:21.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.613][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:21.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:21.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.622][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:21.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:21.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.689][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.781][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.794][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.807][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.870][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.879][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:21.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.932][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.945][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.957][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.963][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:21.965][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:21.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:21.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.035][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.038][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.043][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:22.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.092][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.104][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.116][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.119][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.126][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.128][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:22.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.203][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.212][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:22.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.245][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.258][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.270][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.280][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.283][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.287][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:22.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:22.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:22.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:22.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:22.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.363][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:22.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:22.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.372][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:22.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:22.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:22.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.430][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:22.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:22.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.441][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:22.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:22.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.453][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:22.457][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:22.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.463][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:22.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:22.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:22.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:22.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:22.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.535][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:22.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:22.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.542][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.581][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.612][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.614][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.621][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.624][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.690][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.692][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.697][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:22.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.763][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.767][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.771][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.773][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:22.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.879][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.882][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.888][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:22.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.960][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.963][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.969][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:22.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:22.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:22.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.038][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.040][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.045][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.111][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.119][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.187][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.196][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.231][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.250][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.261][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.270][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.273][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.277][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.307][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:23.310][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:23.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.315][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.326][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.328][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.333][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.351][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.353][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.387][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.410][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.415][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.431][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:23.434][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:23.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.439][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.451][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:23.453][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:23.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.458][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.470][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:23.472][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:23.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.477][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.488][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:23.491][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:23.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.496][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.508][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:23.511][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:23.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.516][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.528][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:23.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:23.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.534][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.546][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:23.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:23.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.554][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.565][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.568][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:23.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.572][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.583][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:23.586][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:23.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.591][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.602][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:23.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:23.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.610][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.621][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:23.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:23.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.629][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.640][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:23.642][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:23.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.647][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.667][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.671][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.676][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.687][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:23.690][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:23.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.695][ef$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:23.714][biodb::testThat]
biodb.INFO [2024-08-12 01:06:23.716][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-08-12 01:06:23.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:23.721][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:23.758][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-08-12 01:06:23.772][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:23.780][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:23.784][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:23.789][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-08-12 01:06:23.792][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-12 01:06:23.796][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-08-12 01:06:23.799][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:23.866][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:23.869][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:23.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:23.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:23.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:23.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:23.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:23.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:23.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:23.901][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:23.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:23.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.908][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:23.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.922][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.925][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.929][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.932][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.941][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.944][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.948][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.950][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:23.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.960][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.962][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.966][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.969][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:23.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.987][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:23.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:23.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:23.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.001][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.004][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.009][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.035][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.039][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.052][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.054][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.059][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.062][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.075][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.079][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.083][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.099][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.102][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.106][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.109][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.121][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:24.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:24.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.130][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.149][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:24.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:24.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.156][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:24.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:24.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.170][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.172][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.177][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.198][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.212][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.215][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.220][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.235][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:24.238][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:24.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.242][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.245][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:24.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:24.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.258][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:24.260][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:24.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.265][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.268][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:24.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.278][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:24.281][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.287][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.289][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:24.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:24.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:24.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:24.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:24.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:24.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:24.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.336][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.357][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:24.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.367][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.377][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.388][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:24.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:24.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.476][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:24.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.515][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:24.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.525][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:24.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:24.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:24.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.566][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:24.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:24.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.575][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:24.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:24.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:24.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:24.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:24.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:24.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:24.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:24.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:24.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:24.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:24.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:24.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.673][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:24.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:24.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.766][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.776][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.786][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:24.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.795][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.816][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:24.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:24.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.837][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:24.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.858][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:24.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.902][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:24.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:24.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:24.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.967][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.978][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:24.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:24.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:24.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:24.995][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:24.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:25.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.061][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-12 01:06:25.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-08-12 01:06:25.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-08-12 01:06:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-08-12 01:06:25.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-08-12 01:06:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-08-12 01:06:25.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-08-12 01:06:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:25.117][biodb::testThat]
biodb.INFO [2024-08-12 01:06:25.120][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-08-12 01:06:25.122][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:25.124][biodb::testThat]
biodb.TRACE[2024-08-12 01:06:25.131][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.134][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.138][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.141][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-08-12 01:06:25.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.252][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-08-12 01:06:25.255][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-08-12 01:06:25.258][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-12 01:06:25.261][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-12 01:06:25.265][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.269][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.272][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:25.276][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.278][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:25.281][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:25.284][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:25.287][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:25.290][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:25.292][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:25.295][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:25.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:25.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:25.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.339][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:25.342][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:25.344][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-08-12 01:06:25.375][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.378][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.383][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.386][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-08-12 01:06:25.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.423][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.431][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.455][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[2024-08-12 01:06:25.604][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-12 01:06:25.607][private$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[2024-08-12 01:06:25.609][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-08-12 01:06:25.647][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.651][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.654][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:25.657][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.659][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:25.701][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:25.704][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:25.706][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:25.709][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:25.711][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:25.714][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:25.718][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.729][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.739][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.750][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:25.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:25.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.768][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:25.771][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:25.773][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-08-12 01:06:25.805][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.807][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.812][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.814][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-08-12 01:06:25.845][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.855][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.867][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.884][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-08-12 01:06:25.889][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-08-12 01:06:25.891][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-08-12 01:06:25.894][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-08-12 01:06:25.898][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.902][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.906][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:25.910][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:25.912][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:25.916][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:25.919][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:25.921][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:25.924][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:25.927][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:25.929][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:25.933][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.943][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.953][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:25.964][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:25.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:25.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:25.975][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:25.977][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:25.979][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-08-12 01:06:26.016][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.019][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-08-12 01:06:26.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:26.024][biodb::testThat]
biodb.TRACE[2024-08-12 01:06:26.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:26.100][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-08-12 01:06:26.103][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-12 01:06:26.106][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-12 01:06:26.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:26.113][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:26.117][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:26.120][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:26.122][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:26.125][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:26.127][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:26.137][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:26.140][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:26.142][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:26.144][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:26.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.179][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:26.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:26.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:26.189][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:26.192][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-08-12 01:06:26.230][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.232][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-08-12 01:06:26.235][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:26.237][biodb::testThat]
biodb.TRACE[2024-08-12 01:06:26.293][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.305][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.315][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:26.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:26.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.458][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.470][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-12 01:06:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.488][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:26.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-12 01:06:26.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:26.499][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:26.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-12 01:06:26.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:26.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:26.528][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.530][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-08-12 01:06:26.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:26.534][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.555][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.562][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-08-12 01:06:26.567][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:26.569][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.592][biodb::testThat]
biodb.INFO [2024-08-12 01:06:26.594][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-08-12 01:06:26.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:26.600][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:26.608][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-08-12 01:06:27.777][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-08-12 01:06:27.890][biodb::testThat]
biodb.INFO [2024-08-12 01:06:27.892][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-08-12 01:06:27.894][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:27.897][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:28.385][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-08-12 01:06:28.439][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:28.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:28.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:28.445][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:28.448][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:28.450][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:28.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:28.454][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:28.457][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:28.459][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:28.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:28.464][ef$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:28.467][biodb::testThat]
biodb.INFO [2024-08-12 01:06:28.469][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-08-12 01:06:28.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:28.474][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:28.478][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-08-12 01:06:28.803][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:28.817][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:28.821][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:28.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-08-12 01:06:28.917][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-08-12 01:06:28.919][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-08-12 01:06:28.933][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:28.936][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:28.940][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:28.955][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:28.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:28.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:28.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:28.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:28.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:29.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:29.004][FUN] Functions in observer BiodbConfig: [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[2024-08-12 01:06:29.018][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.039][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:29.188][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-08-12 01:06:29.191][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-08-12 01:06:29.303][biodb::testThat]
biodb.INFO [2024-08-12 01:06:29.306][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-08-12 01:06:29.309][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:29.398][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:29.440][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-08-12 01:06:29.442][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-08-12 01:06:29.445][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:29.458][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:29.461][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:29.466][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-08-12 01:06:29.476][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-08-12 01:06:29.479][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-08-12 01:06:29.481][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:29.488][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:29.492][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:29.495][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:29.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:29.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:29.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:29.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:29.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:29.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:29.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:29.529][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.544][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:29.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:29.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:29.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:29.701][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-08-12 01:06:29.704][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-08-12 01:06:29.706][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-08-12 01:06:29.782][biodb::testThat]
biodb.INFO [2024-08-12 01:06:29.785][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-08-12 01:06:29.787][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:29.805][biodb::testThat]
biodb.INFO [2024-08-12 01:06:29.930][biodb::testThat]
biodb.INFO [2024-08-12 01:06:29.932][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-08-12 01:06:29.935][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:29.937][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:29.973][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:29.977][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:29.990][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:29.994][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:29.997][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:30.000][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:30.014][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:30.017][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:30.019][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-08-12 01:06:30.060][biodb::testThat]
biodb.INFO [2024-08-12 01:06:30.076][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-08-12 01:06:30.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:30.081][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:30.097][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:30.101][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:30.104][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:30.118][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:30.121][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:30.124][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:30.137][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:30.140][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:30.142][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-08-12 01:06:30.187][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:30.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:30.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:30.207][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:30.210][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:30.224][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:30.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:30.229][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:30.233][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:30.247][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:30.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:30.251][ef$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:30.254][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-12 01:06:30.269][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-12 01:06:30.313][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-12 01:06:30.316][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-12 01:06:30.318][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:30.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:30.334][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:30.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:30.339][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.341][FUN] Functions in observer BiodbConfig: [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 [2024-08-12 01:06:30.360][biodb::testContext]
biodb.INFO [2024-08-12 01:06:30.362][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:30.376][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-08-12 01:06:30.378][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:30.380][biodb::testContext]
biodb.INFO [2024-08-12 01:06:30.390][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:30.405][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:30.414][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:30.427][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-12 01:06:30.430][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.452][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-12 01:06:30.454][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.473][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-12 01:06:30.475][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.495][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-12 01:06:30.497][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-12 01:06:30.511][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-12 01:06:30.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.531][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-12 01:06:30.534][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-12 01:06:30.536][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.556][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-12 01:06:30.558][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-12 01:06:30.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.597][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-12 01:06:30.599][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-12 01:06:30.602][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-12 01:06:30.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.621][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-12 01:06:30.634][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.640][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[2024-08-12 01:06:30.642][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-12 01:06:30.656][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-12 01:06:30.659][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-12 01:06:30.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.679][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:30.683][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-12 01:06:30.686][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-12 01:06:30.699][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-12 01:06:30.702][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-12 01:06:30.704][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-12 01:06:30.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.723][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-12 01:06:30.726][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-12 01:06:30.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.744][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-12 01:06:30.746][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-12 01:06:30.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.766][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-12 01:06:30.768][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-12 01:06:30.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.790][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-12 01:06:30.803][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-12 01:06:30.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.825][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-12 01:06:30.828][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-12 01:06:30.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.847][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:30.850][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-12 01:06:30.892][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-12 01:06:30.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.910][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-12 01:06:30.912][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-12 01:06:30.915][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-12 01:06:30.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:30.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:30.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:30.938][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-12 01:06:30.942][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:30.957][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-08-12 01:06:30.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:30.962][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:30.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:30.977][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:30.980][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:30.982][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:30.985][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:30.999][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:31.001][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.004][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-12 01:06:31.006][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:31.019][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.022][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.024][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:31.024][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:31.024][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:31.024][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:31.024][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:31.026][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:31.039][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.041][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.043][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:31.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.047][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.061][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.063][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.065][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:31.068][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:31.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.082][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.085][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-12 01:06:31.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.105][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:31.107][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.111][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:31.123][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.126][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.128][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.130][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.143][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:31.145][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:31.148][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.151][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-12 01:06:31.173][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:31.188][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.191][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.193][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:31.193][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:31.193][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:31.193][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:31.193][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:31.207][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:31.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.214][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:31.226][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.231][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.233][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.235][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:31.249][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:31.252][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.254][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.257][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-12 01:06:31.271][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.274][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-08-12 01:06:31.276][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.289][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:31.291][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.294][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.296][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.309][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.311][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:31.314][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:31.316][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.330][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-12 01:06:31.332][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:31.335][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.337][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.350][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.353][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:31.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.371][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:31.374][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.376][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.393][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.396][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:31.398][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:31.411][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.413][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.417][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-12 01:06:31.432][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.436][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:31.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.453][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:31.456][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.472][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.475][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.478][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:31.493][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:31.495][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.498][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-12 01:06:31.511][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:31.514][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:31.519][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.533][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:31.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.541][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:31.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:31.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:31.558][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:31.561][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:31.576][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:31.579][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:31.582][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:31.596][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:31.599][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.725][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[2024-08-12 01:06:31.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.815][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[2024-08-12 01:06:31.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:31.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:31.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:31.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:31.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:31.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.048][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[2024-08-12 01:06:32.051][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-12 01:06:32.067][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-12 01:06:32.071][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-12 01:06:32.075][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-12 01:06:32.092][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-12 01:06:32.095][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:32.099][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:32.114][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:32.118][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-12 01:06:32.121][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:32.131][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:32.135][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-12 01:06:32.149][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:32.154][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:32.157][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-12 01:06:32.175][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:32.179][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-12 01:06:32.182][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-12 01:06:32.201][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-12 01:06:32.205][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-12 01:06:32.208][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-12 01:06:32.224][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-12 01:06:32.227][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-12 01:06:32.230][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-12 01:06:32.245][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-12 01:06:32.248][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-12 01:06:32.263][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-12 01:06:32.267][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-12 01:06:32.270][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-12 01:06:32.285][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-12 01:06:32.292][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-12 01:06:32.295][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-12 01:06:32.310][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-12 01:06:32.313][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-12 01:06:32.316][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-12 01:06:32.331][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-12 01:06:32.336][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-12 01:06:32.339][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-12 01:06:32.352][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-12 01:06:32.356][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-12 01:06:32.379][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-12 01:06:32.392][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-12 01:06:32.396][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-12 01:06:32.400][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-12 01:06:32.416][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-12 01:06:32.420][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-12 01:06:32.423][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-12 01:06:32.437][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-12 01:06:32.440][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-12 01:06:32.443][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-12 01:06:32.459][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-12 01:06:32.463][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-12 01:06:32.466][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-12 01:06:32.480][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-12 01:06:32.484][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-12 01:06:32.501][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-12 01:06:32.504][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-12 01:06:32.508][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-12 01:06:32.523][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-12 01:06:32.526][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-12 01:06:32.529][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-12 01:06:32.543][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-12 01:06:32.547][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-12 01:06:32.550][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-12 01:06:32.565][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-12 01:06:32.568][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-12 01:06:32.572][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-12 01:06:32.586][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-12 01:06:32.590][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-12 01:06:32.604][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-12 01:06:32.608][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-12 01:06:32.612][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-12 01:06:32.625][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-12 01:06:32.629][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-12 01:06:32.632][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-12 01:06:32.644][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-12 01:06:32.648][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-12 01:06:32.652][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-12 01:06:32.668][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-12 01:06:32.671][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-12 01:06:32.675][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-12 01:06:32.691][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-12 01:06:32.694][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-12 01:06:32.700][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-12 01:06:32.714][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:32.717][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:32.719][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.733][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.759][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[2024-08-12 01:06:32.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.886][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[2024-08-12 01:06:32.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:32.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:32.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:32.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:32.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:32.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:32.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:32.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:33.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:33.311][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:33.314][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:33.330][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:33.333][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-12 01:06:33.335][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:33.348][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:33.352][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:33.355][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-12 01:06:33.357][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:33.370][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:33.373][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-12 01:06:33.375][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:33.379][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:33.392][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-12 01:06:33.395][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-12 01:06:33.397][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-12 01:06:33.400][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:33.414][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:33.414][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-12 01:06:33.414][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-12 01:06:33.416][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-12 01:06:33.418][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:33.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:33.434][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:33.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:33.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:33.440][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:33.443][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:33.443][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-12 01:06:33.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:33.457][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:33.460][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:33.463][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:33.475][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-12 01:06:33.498][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:33.502][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:33.516][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:33.520][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:33.538][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:33.540][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-12 01:06:33.543][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:33.558][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:33.561][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:33.563][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:33.576][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-12 01:06:33.578][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-12 01:06:33.581][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:33.581][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-12 01:06:33.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:33.585][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:33.602][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-12 01:06:33.604][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-12 01:06:33.606][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:33.621][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:33.624][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:33.626][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:33.629][private$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[2024-08-12 01:06:33.644][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:33.646][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-12 01:06:33.649][biodb::testThat]
biodb.INFO [2024-08-12 01:06:33.662][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-08-12 01:06:33.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:33.667][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:33.685][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:33.689][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:33.703][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:33.707][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:33.709][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:33.712][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:33.726][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:33.728][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:33.731][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:33.749][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-08-12 01:06:33.771][biodb::testThat]
biodb.INFO [2024-08-12 01:06:33.775][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-08-12 01:06:33.790][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:33.792][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:33.797][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-08-12 01:06:33.799][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:33.814][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:33.817][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:33.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-08-12 01:06:33.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-12 01:06:33.840][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-12 01:06:33.853][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:33.856][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:33.858][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:33.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:33.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:33.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:33.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:33.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:33.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:33.916][FUN] Functions in observer BiodbConfig: [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[2024-08-12 01:06:33.923][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:33.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:33.940][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:33.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:33.963][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:33.980][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:33.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:33.986][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:33.989][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:34.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:34.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.013][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.028][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.033][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.036][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.057][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.097][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.102][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.147][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.174][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.189][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.193][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.218][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:34.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:34.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.236][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:34.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:34.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.260][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:34.262][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:34.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.278][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.303][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:34.305][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:34.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.320][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.323][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:34.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.342][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:34.344][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:34.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.359][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:34.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:34.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.382][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:34.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.399][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.402][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:34.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.423][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:34.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:34.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.440][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:34.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:34.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.465][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:34.468][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:34.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.483][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:34.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:34.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.508][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:34.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:34.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.526][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:34.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.550][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:34.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:34.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.568][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:34.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:34.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.591][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:34.594][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:34.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.609][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.612][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:34.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.651][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:34.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:34.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.670][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.672][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:34.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.693][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:34.696][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:34.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.711][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.714][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:34.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:34.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:34.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:34.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:34.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:34.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.799][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.820][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.839][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.859][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:34.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:34.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:34.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:35.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.107][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:35.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.267][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:35.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:35.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:35.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:35.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:35.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:35.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:35.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:35.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:35.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.515][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.559][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:35.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:35.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:35.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:35.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:35.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:35.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:35.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:35.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.714][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.749][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:35.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.794][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.840][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.863][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:35.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:35.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:35.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:35.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:35.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.974][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:35.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:35.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:35.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:36.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:36.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:36.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:36.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:36.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:36.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:36.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:36.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.208][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.227][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.269][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:36.425][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-08-12 01:06:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:36.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:36.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:36.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:36.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-12 01:06:36.536][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-12 01:06:36.538][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-12 01:06:36.553][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-12 01:06:36.555][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-12 01:06:36.557][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:36.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:36.572][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:36.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:36.577][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-08-12 01:06:36.598][biodb::testContext]
biodb.INFO [2024-08-12 01:06:36.601][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:36.614][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-08-12 01:06:36.616][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-12 01:06:36.618][biodb::testContext]
biodb.INFO [2024-08-12 01:06:36.639][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:36.642][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:36.661][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:36.664][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-12 01:06:36.677][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.686][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-12 01:06:36.701][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.720][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-12 01:06:36.722][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.743][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-12 01:06:36.745][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-12 01:06:36.748][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-12 01:06:36.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.770][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-12 01:06:36.772][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-12 01:06:36.786][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.794][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-12 01:06:36.809][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-12 01:06:36.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.830][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-12 01:06:36.833][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-12 01:06:36.835][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-12 01:06:36.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.852][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.DEBUG[2024-08-12 01:06:36.855][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-12 01:06:36.858][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.880][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-12 01:06:36.895][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-12 01:06:36.898][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-12 01:06:36.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.919][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:36.922][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-12 01:06:36.924][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-12 01:06:36.926][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-12 01:06:36.943][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-12 01:06:36.946][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-12 01:06:36.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.967][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-12 01:06:36.970][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-12 01:06:36.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:36.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:36.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:36.988][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-12 01:06:36.990][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-12 01:06:36.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.033][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-12 01:06:37.036][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-12 01:06:37.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.058][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-12 01:06:37.061][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-12 01:06:37.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.080][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-12 01:06:37.094][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-12 01:06:37.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.104][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-12 01:06:37.117][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-12 01:06:37.166][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-12 01:06:37.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.174][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-12 01:06:37.187][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-12 01:06:37.189][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-12 01:06:37.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.209][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-12 01:06:37.215][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.227][self$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[2024-08-12 01:06:37.230][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:37.235][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.250][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.252][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.255][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:37.268][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:37.273][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.275][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-12 01:06:37.278][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:37.289][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.292][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.295][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:37.295][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:37.295][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:37.295][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:37.295][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:37.297][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:37.308][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.312][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:37.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.324][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.327][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.329][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.331][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:37.333][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:37.343][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.345][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.348][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-12 01:06:37.353][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.355][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:37.369][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:37.373][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.376][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.391][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.394][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.396][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:37.398][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:37.416][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.418][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-12 01:06:37.421][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:37.423][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.439][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.442][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:37.442][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-12 01:06:37.442][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-12 01:06:37.442][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-12 01:06:37.442][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-12 01:06:37.444][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:37.447][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.461][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.464][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:37.466][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.471][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.485][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.487][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:37.489][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:37.491][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.505][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.508][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-12 01:06:37.512][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.526][self$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[2024-08-12 01:06:37.529][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.531][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:37.533][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.547][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.550][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.552][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.554][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-12 01:06:37.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:37.570][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.572][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-12 01:06:37.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:37.577][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.591][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.593][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.615][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:37.617][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.619][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.634][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:37.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.643][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.656][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.659][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:37.661][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:37.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.676][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.680][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-12 01:06:37.684][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.697][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-12 01:06:37.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:37.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.718][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.720][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.727][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-12 01:06:37.741][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:37.743][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.747][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-12 01:06:37.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:37.763][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.766][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:37.768][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.782][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-12 01:06:37.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.790][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:37.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:37.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:37.807][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:37.809][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.812][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:37.825][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:37.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:37.830][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:37.833][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:37.845][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.912][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[2024-08-12 01:06:37.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.933][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[2024-08-12 01:06:37.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:37.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:37.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:37.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:37.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:37.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.247][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-12 01:06:38.260][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-12 01:06:38.263][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-12 01:06:38.266][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-12 01:06:38.280][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-12 01:06:38.283][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:38.287][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:38.301][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:38.305][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-12 01:06:38.308][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:38.322][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:38.326][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-12 01:06:38.329][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-12 01:06:38.344][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-12 01:06:38.347][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-12 01:06:38.351][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:38.365][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-12 01:06:38.369][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-12 01:06:38.373][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-12 01:06:38.388][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-12 01:06:38.391][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-12 01:06:38.405][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-12 01:06:38.409][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-12 01:06:38.412][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-12 01:06:38.426][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-12 01:06:38.430][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-12 01:06:38.434][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-12 01:06:38.448][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-12 01:06:38.452][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-12 01:06:38.455][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-12 01:06:38.469][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-12 01:06:38.474][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-12 01:06:38.477][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-12 01:06:38.491][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-12 01:06:38.495][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-12 01:06:38.509][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-12 01:06:38.512][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-12 01:06:38.515][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-12 01:06:38.531][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-12 01:06:38.535][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-12 01:06:38.538][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-12 01:06:38.552][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-12 01:06:38.555][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-12 01:06:38.559][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-12 01:06:38.575][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-12 01:06:38.579][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-12 01:06:38.594][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-12 01:06:38.598][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-12 01:06:38.602][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-12 01:06:38.618][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-12 01:06:38.621][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-12 01:06:38.625][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-12 01:06:38.642][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-12 01:06:38.645][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-12 01:06:38.648][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-12 01:06:38.662][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-12 01:06:38.666][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-12 01:06:38.668][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-12 01:06:38.706][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-12 01:06:38.709][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-12 01:06:38.713][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-12 01:06:38.728][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-12 01:06:38.731][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-12 01:06:38.734][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-12 01:06:38.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-12 01:06:38.752][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-12 01:06:38.756][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-12 01:06:38.769][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-12 01:06:38.773][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-12 01:06:38.776][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-12 01:06:38.793][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-12 01:06:38.796][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-12 01:06:38.803][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-12 01:06:38.819][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-12 01:06:38.822][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-12 01:06:38.826][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-12 01:06:38.840][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-12 01:06:38.844][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-12 01:06:38.847][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-12 01:06:38.863][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-12 01:06:38.867][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-12 01:06:38.882][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-12 01:06:38.885][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-12 01:06:38.888][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-12 01:06:38.903][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-08-12 01:06:38.905][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-12 01:06:38.907][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.911][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:38.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:38.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:38.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:38.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:38.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:38.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:38.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:38.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:38.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:38.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:38.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.048][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[2024-08-12 01:06:39.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.142][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[2024-08-12 01:06:39.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.267][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[2024-08-12 01:06:39.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.293][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[2024-08-12 01:06:39.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.359][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[2024-08-12 01:06:39.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-12 01:06:39.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:39.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:39.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:39.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:39.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:39.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:39.507][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-12 01:06:39.511][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:39.529][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:39.531][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-12 01:06:39.534][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:39.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-12 01:06:39.550][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:39.552][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-12 01:06:39.555][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:39.557][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-12 01:06:39.570][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-12 01:06:39.573][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-12 01:06:39.575][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:39.577][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-12 01:06:39.590][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-12 01:06:39.592][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-12 01:06:39.596][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-12 01:06:39.609][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-12 01:06:39.609][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-12 01:06:39.609][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-12 01:06:39.611][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-12 01:06:39.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:39.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:39.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-12 01:06:39.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-12 01:06:39.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-12 01:06:39.635][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-12 01:06:39.638][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:39.638][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-12 01:06:39.651][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:39.653][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:39.655][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-12 01:06:39.658][self$setPropertyValue]
biodb.DEBUG[2024-08-12 01:06:39.673][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-12 01:06:39.677][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-12 01:06:39.681][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-12 01:06:39.696][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-12 01:06:39.701][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-12 01:06:39.720][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:39.722][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-12 01:06:39.725][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:39.740][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:39.743][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:39.745][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:39.759][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-12 01:06:39.762][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-12 01:06:39.764][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-12 01:06:39.764][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-12 01:06:39.785][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-12 01:06:39.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-12 01:06:39.801][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-12 01:06:39.803][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-12 01:06:39.805][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-12 01:06:39.808][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:39.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:39.825][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:39.828][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-12 01:06:39.841][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-12 01:06:39.844][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-12 01:06:39.847][biodb::testThat]
biodb.INFO [2024-08-12 01:06:39.849][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-08-12 01:06:39.862][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-12 01:06:39.864][biodb::testThat]
biodb.DEBUG[2024-08-12 01:06:39.868][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-12 01:06:39.881][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-08-12 01:06:39.884][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-08-12 01:06:39.890][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:39.904][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:39.907][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:39.910][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:39.924][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:39.927][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:39.929][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:39.931][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:39.946][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:39.949][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:39.951][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-08-12 01:06:39.967][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-08-12 01:06:39.969][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:39.973][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:39.987][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:39.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-08-12 01:06:39.995][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-12 01:06:40.010][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-08-12 01:06:40.013][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:40.016][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:40.034][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:40.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:40.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:40.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:40.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:40.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:40.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:40.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:40.106][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:40.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:40.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.127][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:40.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.153][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:40.156][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:40.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.171][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.175][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:40.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.195][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:40.198][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:40.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.214][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:40.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:40.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.236][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:40.239][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:40.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.255][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:40.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:40.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:40.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:40.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.299][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:40.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.322][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:40.324][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:40.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.360][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:40.388][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:40.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.403][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:40.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:40.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.427][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:40.429][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:40.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.444][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.447][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:40.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.468][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:40.471][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:40.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.485][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:40.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:40.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.507][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:40.509][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:40.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.524][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.527][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.549][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:40.551][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:40.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.567][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:40.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.594][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:40.607][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:40.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.612][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:40.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.636][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:40.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:40.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.654][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:40.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:40.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.691][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:40.694][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:40.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.709][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:40.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:40.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.735][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:40.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:40.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.756][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:40.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:40.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.780][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:40.794][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:40.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.800][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:40.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:40.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:40.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:40.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.841][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:40.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.876][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:40.879][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:40.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.896][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.899][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:40.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:40.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:40.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:40.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.006][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.026][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.048][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:41.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.069][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.111][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:41.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:41.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.278][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.299][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.344][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.397][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:41.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.468][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:41.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.491][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:41.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:41.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.547][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:41.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:41.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.583][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:41.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:41.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.616][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:41.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:41.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:41.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:41.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:41.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:41.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:41.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:41.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:41.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:41.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:41.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:41.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:41.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.837][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.883][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:41.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.030][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.053][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.099][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.119][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:42.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:42.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:42.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:42.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.236][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:42.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.262][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:42.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.343][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:42.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:42.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:42.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:42.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.496][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.538][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:42.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:42.690][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-12 01:06:42.705][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:42.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.725][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:42.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.746][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:42.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:42.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:42.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:42.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:42.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:42.815][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:42.818][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:42.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:42.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:42.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:42.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:42.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:42.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:42.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:42.883][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-08-12 01:06:42.888][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-12 01:06:42.892][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:42.911][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-12 01:06:42.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-08-12 01:06:42.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-12 01:06:42.937][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-12 01:06:42.940][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-12 01:06:42.943][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-12 01:06:42.957][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-12 01:06:42.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:42.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:42.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:42.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:42.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:42.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:43.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:43.017][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:43.020][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:43.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.034][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:43.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:43.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.059][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:43.061][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:43.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.075][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.078][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:43.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.099][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.101][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.116][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.119][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.139][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.142][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.157][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.159][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.199][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.221][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:43.224][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:43.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.239][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:43.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:43.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:43.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.279][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:43.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:43.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.303][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:43.306][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:43.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.319][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:43.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:43.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.362][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:43.365][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:43.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.381][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.384][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:43.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.403][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:43.406][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:43.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.424][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.427][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:43.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:43.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.448][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:43.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:43.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.465][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:43.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.488][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:43.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:43.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.505][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:43.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.529][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:43.532][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:43.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.545][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:43.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:43.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:43.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.589][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:43.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:43.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.611][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:43.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:43.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.629][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:43.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.650][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:43.653][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:43.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.666][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.669][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:43.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:43.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.691][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:43.694][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:43.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.712][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.715][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:43.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:43.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.736][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:43.740][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:43.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.756][ef$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.759][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-12 01:06:43.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:43.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:43.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:43.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:43.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:43.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.843][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.863][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-12 01:06:43.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.925][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.945][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.965][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-12 01:06:43.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:43.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:44.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:44.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-12 01:06:44.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-12 01:06:44.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-12 01:06:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.111][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.133][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.153][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-12 01:06:44.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-12 01:06:44.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.239][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.280][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-12 01:06:44.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:44.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:44.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.322][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:44.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.331][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:44.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:44.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.352][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:44.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:44.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:44.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:44.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-12 01:06:44.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-12 01:06:44.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:44.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:44.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:44.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:44.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-12 01:06:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-12 01:06:44.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.556][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.596][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-12 01:06:44.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-12 01:06:44.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:44.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:44.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:44.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:44.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:44.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.741][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.761][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.781][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-12 01:06:44.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.802][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.823][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.843][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-12 01:06:44.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.864][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:44.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:44.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:44.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.907][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-12 01:06:44.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-12 01:06:44.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.933][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:44.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:44.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:44.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:44.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.034][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-12 01:06:45.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-12 01:06:45.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:45.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:45.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:45.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:45.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:45.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:45.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:45.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-12 01:06:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-12 01:06:45.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.161][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.180][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.211][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-12 01:06:45.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-12 01:06:45.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-12 01:06:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:45.356][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-08-12 01:06:45.369][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:45.455][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:45.458][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:45.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:45.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:45.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:45.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:45.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:45.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:45.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:45.533][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-12 01:06:45.547][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-08-12 01:06:45.550][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.INFO [2024-08-12 01:06:45.553][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-08-12 01:06:45.555][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-08-12 01:06:45.574][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-08-12 01:06:45.588][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-08-12 01:06:45.592][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-08-12 01:06:45.595][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-12 01:06:45.613][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-12 01:06:45.616][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-12 01:06:45.625][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-08-12 01:06:45.630][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker175361b87aa79marker".
biodb.TRACE[2024-08-12 01:06:45.633][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-08-12 01:06:45.647][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-12 01:06:45.651][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-08-12 01:06:45.654][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-08-12 01:06:45.668][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2024-08-12 01:06:45.671][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-12 01:06:45.673][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2024-08-12 01:06:45.682][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-08-12 01:06:45.685][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-08-12 01:06:45.687][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-08-12 01:06:45.717][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2024-08-12 01:06:45.760][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-08-12 01:06:45.762][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-12 01:06:45.765][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-12 01:06:45.767][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-08-12 01:06:45.783][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker1753667c8fc0dmarker".
biodb.TRACE[2024-08-12 01:06:45.786][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-08-12 01:06:45.799][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-12 01:06:45.801][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:45.804][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:45.807][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:45.820][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:45.822][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:45.825][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:45.827][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:45.840][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:45.842][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:45.846][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.867][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.887][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.908][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.951][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:45.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:45.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:45.995][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:45.997][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:46.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:46.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:46.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:46.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:46.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:46.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:46.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:46.056][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.121][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:46.222][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-08-12 01:06:46.225][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:46.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:46.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:46.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:46.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:46.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:46.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:46.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-12 01:06:46.303][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-12 01:06:46.306][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-08-12 01:06:46.308][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-08-12 01:06:46.323][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:46.327][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:46.342][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-12 01:06:46.347][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-12 01:06:46.349][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-12 01:06:46.352][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-12 01:06:46.366][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-12 01:06:46.368][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-12 01:06:46.371][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-12 01:06:46.384][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-12 01:06:46.386][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-12 01:06:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.413][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.433][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.478][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:46.568][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-08-12 01:06:46.571][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-08-12 01:06:46.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:46.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:46.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:46.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:46.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:46.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:46.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-12 01:06:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.692][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.735][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-12 01:06:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-12 01:06:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-12 01:06:46.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-12 01:06:46.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-12 01:06:46.798][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-12 01:06:46.801][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-12 01:06:46.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-12 01:06:46.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:46.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:46.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:46.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:46.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:46.849][FUN] Functions in observer BiodbConfig: [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 [2024-08-12 01:06:46.889][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-12 01:06:46.891][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-12 01:06:46.907][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-12 01:06:46.909][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-12 01:06:46.911][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-12 01:06:46.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-12 01:06:46.915][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-12 01:06:46.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-12 01:06:46.931][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-12 01:06:46.934][FUN] Functions in observer 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 
 21.182   1.038  34.710

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

name	user	system	elapsed
HmdbMetabolitesConn	3.910	1.226	5.991
HmdbMetabolitesEntry	0.748	0.030	0.896
hmdbToSqlite	4.599	0.084	6.683