Multiple platform build/check report for BioC 3.20 - CHECK results for biodbHmdb on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4683
palomino8	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4379
lconway	macOS 12.7.1 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4450
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4399
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 kjohnson3

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: 1.11.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz

StartedAt: 2024-07-17 20:15:14 -0400 (Wed, 17 Jul 2024)

EndedAt: 2024-07-17 20:15:33 -0400 (Wed, 17 Jul 2024)

EllapsedTime: 19.2 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

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


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

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-07-17 20:15:28.147][biodb::testContext]
biodb.INFO [2024-07-17 20:15:28.149][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:28.149][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-07-17 20:15:28.149][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:28.150][biodb::testContext]
biodb.INFO [2024-07-17 20:15:28.150][biodb::testThat]
biodb.INFO [2024-07-17 20:15:28.150][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-07-17 20:15:28.151][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:28.151][biodb::testThat]
biodb.INFO [2024-07-17 20:15:28.192][biodb::testContext]
biodb.INFO [2024-07-17 20:15:28.192][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:28.193][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-17 20:15:28.193][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:28.193][biodb::testContext]
biodb.INFO [2024-07-17 20:15:28.197][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:28.198][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:28.201][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:28.202][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 20:15:28.202][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.203][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 20:15:28.212][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.213][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 20:15:28.213][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.214][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 20:15:28.215][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 20:15:28.215][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 20:15:28.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.216][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 20:15:28.216][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 20:15:28.217][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.218][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 20:15:28.218][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 20:15:28.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.219][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 20:15:28.219][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 20:15:28.219][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 20:15:28.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.220][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 20:15:28.221][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.221][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[2024-07-17 20:15:28.222][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 20:15:28.222][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 20:15:28.222][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 20:15:28.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.223][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:28.223][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 20:15:28.224][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 20:15:28.224][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 20:15:28.224][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 20:15:28.224][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 20:15:28.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.225][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 20:15:28.226][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 20:15:28.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.227][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 20:15:28.227][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 20:15:28.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.228][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 20:15:28.228][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 20:15:28.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.229][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 20:15:28.229][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 20:15:28.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.230][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 20:15:28.230][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 20:15:28.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.231][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:28.232][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 20:15:28.237][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 20:15:28.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.239][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 20:15:28.239][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 20:15:28.239][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 20:15:28.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.241][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 20:15:28.253][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.258][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 20:15:28.258][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:28.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.259][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.259][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.259][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.260][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:28.260][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:28.260][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.260][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:28.261][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:28.262][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:28.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:28.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.263][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.266][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.266][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.267][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.267][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.267][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 20:15:28.268][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.268][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:28.268][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.268][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:28.269][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.269][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.269][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.269][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.270][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:28.270][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:28.270][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.270][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 20:15:28.271][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:28.271][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.271][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:28.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.272][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.273][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:28.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.273][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.274][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.274][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.274][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.275][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.275][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 20:15:28.275][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.276][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 20:15:28.276][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.276][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:28.277][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.277][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.277][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.277][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.278][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:28.278][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:28.278][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.278][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 20:15:28.279][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:28.279][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.279][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.279][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.280][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:28.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.280][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.280][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:28.281][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.281][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.281][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.282][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.282][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.282][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.283][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 20:15:28.283][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.283][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:28.284][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.284][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:28.284][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.284][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.285][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.285][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.285][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:28.285][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:28.286][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.286][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 20:15:28.286][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:28.286][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.287][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.287][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.287][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:28.287][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.288][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.288][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:28.288][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.288][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.289][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.289][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.289][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.289][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.289][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.290][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.291][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:28.292][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.295][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[2024-07-17 20:15:28.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.311][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 20:15:28.316][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 20:15:28.316][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 20:15:28.316][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 20:15:28.317][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 20:15:28.317][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:28.318][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:28.319][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:28.319][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 20:15:28.319][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:28.320][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:28.320][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 20:15:28.320][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:28.321][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:28.321][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 20:15:28.322][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:28.322][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 20:15:28.322][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 20:15:28.323][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 20:15:28.323][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 20:15:28.324][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 20:15:28.324][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 20:15:28.324][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 20:15:28.325][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 20:15:28.325][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 20:15:28.325][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 20:15:28.326][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 20:15:28.326][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 20:15:28.327][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 20:15:28.327][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 20:15:28.327][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 20:15:28.328][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 20:15:28.328][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 20:15:28.328][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 20:15:28.329][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 20:15:28.329][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 20:15:28.330][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 20:15:28.330][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 20:15:28.330][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 20:15:28.331][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 20:15:28.331][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 20:15:28.331][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 20:15:28.332][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 20:15:28.332][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 20:15:28.333][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 20:15:28.333][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 20:15:28.333][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 20:15:28.334][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 20:15:28.334][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 20:15:28.334][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 20:15:28.335][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 20:15:28.335][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 20:15:28.336][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 20:15:28.336][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 20:15:28.336][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 20:15:28.337][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 20:15:28.337][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 20:15:28.337][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 20:15:28.338][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 20:15:28.338][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 20:15:28.339][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 20:15:28.339][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 20:15:28.340][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 20:15:28.340][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 20:15:28.340][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 20:15:28.341][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 20:15:28.341][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 20:15:28.342][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 20:15:28.342][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 20:15:28.342][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 20:15:28.343][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 20:15:28.343][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 20:15:28.343][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 20:15:28.344][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 20:15:28.344][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 20:15:28.345][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 20:15:28.345][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 20:15:28.345][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 20:15:28.346][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 20:15:28.346][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 20:15:28.346][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 20:15:28.347][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 20:15:28.347][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 20:15:28.349][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 20:15:28.350][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:28.351][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:28.351][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.352][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:28.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:28.393][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:28.396][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:28.397][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.397][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.397][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:28.398][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.398][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 20:15:28.398][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.398][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.399][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 20:15:28.399][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:28.399][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 20:15:28.400][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:28.401][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:28.401][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 20:15:28.401][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 20:15:28.401][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 20:15:28.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.402][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.402][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:28.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:28.402][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:28.402][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:28.403][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:28.403][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 20:15:28.403][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.403][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.403][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:28.404][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:28.406][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 20:15:28.406][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:28.407][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:28.407][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:28.407][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:28.419][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:28.420][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 20:15:28.421][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:28.423][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:28.425][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:28.425][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:28.426][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 20:15:28.426][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 20:15:28.426][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:28.426][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 20:15:28.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:28.427][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:28.427][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 20:15:28.427][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 20:15:28.428][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:28.437][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:28.438][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:28.438][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:28.438][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:28.439][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:28.439][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 20:15:28.443][biodb::testThat]
biodb.INFO [2024-07-17 20:15:28.443][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-17 20:15:28.443][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:28.443][biodb::testThat]
biodb.TRACE[2024-07-17 20:15:28.445][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-07-17 20:15:28.446][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:28.448][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:28.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:28.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:28.460][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.467][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.467][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.476][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.477][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.477][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.479][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.479][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.480][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.482][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.484][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.484][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.486][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.488][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.488][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.492][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.493][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.494][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.495][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.496][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.496][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.496][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.498][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.498][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.500][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.501][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.503][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.504][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.507][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.508][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.509][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.510][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.511][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.512][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.512][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.514][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:28.514][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.515][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.530][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.533][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.535][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.536][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.537][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.538][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.545][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.548][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.550][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.552][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.553][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.554][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.555][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.556][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.565][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.567][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.569][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.570][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.578][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.579][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.581][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.582][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.584][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:28.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.589][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.593][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:28.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.605][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.606][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:28.618][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 20:15:28.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:28.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.620][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:28.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.621][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:28.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.622][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:28.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:28.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.644][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.651][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.658][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.660][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.660][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.663][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.671][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.671][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.676][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.678][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.680][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.680][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.681][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.694][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.695][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.696][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.704][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.705][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.713][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.714][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.715][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.719][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.723][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.723][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.727][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.728][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.729][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.730][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.731][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.731][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.739][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.740][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.744][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.748][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.748][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.749][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.755][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.756][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.757][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.758][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.759][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.759][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.763][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.764][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.765][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.766][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.767][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.774][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.775][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.776][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.782][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.790][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.790][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.791][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.794][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.796][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.799][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.800][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.801][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.801][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.805][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.806][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.808][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.808][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.810][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.811][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.811][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.814][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.816][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.816][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.818][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.819][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.821][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.821][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.821][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.823][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.823][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.824][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.825][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.826][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.826][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.828][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.829][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.830][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.830][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.832][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.833][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.833][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.834][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.835][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.837][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.839][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.839][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.840][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.841][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.842][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.844][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.845][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.848][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.849][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.850][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.850][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:28.853][biodb::testThat]
biodb.INFO [2024-07-17 20:15:28.853][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-17 20:15:28.853][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:28.854][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:28.858][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-17 20:15:28.862][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:28.864][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:28.865][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:28.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 20:15:28.866][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 20:15:28.867][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-17 20:15:28.867][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:28.875][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:28.875][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:28.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:28.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:28.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:28.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:28.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:28.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:28.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:28.881][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.883][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.884][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.884][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.885][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.886][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.886][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.888][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.889][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.889][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.890][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.892][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.893][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.894][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.894][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.898][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.899][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.899][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.899][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.900][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.901][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.903][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.903][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.905][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.905][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.906][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.907][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.907][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.908][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.909][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.910][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.910][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.914][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.914][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.916][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.916][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.918][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.918][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.922][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:28.922][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.923][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.927][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.928][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.929][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:28.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.930][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.931][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.932][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:28.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:28.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.943][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:28.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:28.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:28.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.951][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.952][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.953][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:28.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:28.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:28.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:28.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:28.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:28.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.964][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.965][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:28.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:28.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.975][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.976][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:28.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.977][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.978][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.979][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:28.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.980][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.981][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:28.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.983][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:28.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.987][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:28.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:28.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:28.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:28.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.994][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.995][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.997][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:28.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:28.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:28.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:28.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:28.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:29.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:29.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:29.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:29.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:29.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:29.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:29.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:29.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.004][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 20:15:29.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-17 20:15:29.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-17 20:15:29.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-17 20:15:29.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-17 20:15:29.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-17 20:15:29.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-17 20:15:29.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:29.012][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.013][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-17 20:15:29.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.013][biodb::testThat]
biodb.TRACE[2024-07-17 20:15:29.014][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.014][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.015][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.015][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-07-17 20:15:29.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.028][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-07-17 20:15:29.029][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-17 20:15:29.029][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 20:15:29.029][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 20:15:29.030][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.030][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.031][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:29.031][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.031][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:29.032][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:29.032][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:29.032][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:29.033][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:29.033][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:29.033][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:29.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.038][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:29.038][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:29.038][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 20:15:29.042][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.042][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.043][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.043][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-07-17 20:15:29.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.048][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.049][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.051][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2024-07-17 20:15:29.072][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 20:15:29.072][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-17 20:15:29.072][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-17 20:15:29.077][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.078][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.078][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:29.078][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.079][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:29.084][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:29.084][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:29.084][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:29.084][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:29.085][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:29.085][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:29.086][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.088][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:29.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:29.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.090][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:29.090][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:29.090][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 20:15:29.097][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.097][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.098][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.098][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-07-17 20:15:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.103][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.104][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.106][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-07-17 20:15:29.106][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-07-17 20:15:29.107][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-17 20:15:29.107][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-17 20:15:29.107][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.108][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.108][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:29.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.109][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:29.109][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:29.110][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:29.110][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:29.110][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:29.110][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:29.111][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:29.111][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.112][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.114][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:29.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.115][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:29.116][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:29.116][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-07-17 20:15:29.121][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.121][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-17 20:15:29.121][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.121][biodb::testThat]
biodb.TRACE[2024-07-17 20:15:29.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.133][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-17 20:15:29.133][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 20:15:29.133][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 20:15:29.134][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.134][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.135][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:29.135][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:29.135][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:29.136][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:29.136][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:29.136][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:29.137][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:29.137][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:29.137][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:29.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:29.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:29.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:29.145][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:29.145][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-07-17 20:15:29.150][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.150][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-17 20:15:29.151][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.151][biodb::testThat]
biodb.TRACE[2024-07-17 20:15:29.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:29.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:29.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:29.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.175][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.176][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 20:15:29.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.177][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:29.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 20:15:29.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:29.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:29.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 20:15:29.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:29.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:29.187][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.187][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-17 20:15:29.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.188][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.191][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.191][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-17 20:15:29.192][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.192][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.195][biodb::testThat]
biodb.INFO [2024-07-17 20:15:29.195][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-17 20:15:29.195][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:29.195][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:29.197][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-07-17 20:15:30.230][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-07-17 20:15:30.254][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.254][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-17 20:15:30.254][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.255][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.397][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-07-17 20:15:30.411][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.412][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.413][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.413][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.414][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.414][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:30.415][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.415][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-07-17 20:15:30.415][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.416][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.416][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-17 20:15:30.434][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:30.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.435][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:30.440][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-17 20:15:30.440][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 20:15:30.441][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 20:15:30.441][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:30.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.442][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:30.442][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:30.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:30.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:30.446][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.447][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:30.454][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-17 20:15:30.454][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-17 20:15:30.459][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.460][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-17 20:15:30.460][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.460][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.475][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-07-17 20:15:30.476][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-07-17 20:15:30.476][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:30.477][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.477][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:30.478][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-07-17 20:15:30.478][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 20:15:30.479][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 20:15:30.479][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:30.479][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.480][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:30.480][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:30.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:30.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:30.484][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.485][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:30.492][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-17 20:15:30.492][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-17 20:15:30.492][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-07-17 20:15:30.496][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.497][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-07-17 20:15:30.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.497][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.504][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.504][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-07-17 20:15:30.504][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.504][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.505][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.505][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.506][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:30.506][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.506][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:30.509][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:30.509][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:30.510][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:30.510][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-07-17 20:15:30.512][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.513][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-07-17 20:15:30.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.513][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.514][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.514][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.514][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:30.515][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.515][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:30.515][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:30.516][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:30.516][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:30.516][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-07-17 20:15:30.519][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.519][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.519][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.520][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.520][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.520][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.521][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.521][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.521][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:30.522][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 20:15:30.522][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 20:15:30.524][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 20:15:30.524][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 20:15:30.525][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.525][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.526][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 20:15:30.527][biodb::testContext]
biodb.INFO [2024-07-17 20:15:30.527][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:30.528][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-07-17 20:15:30.528][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:30.528][biodb::testContext]
biodb.INFO [2024-07-17 20:15:30.529][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:30.530][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:30.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.531][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 20:15:30.532][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.533][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 20:15:30.533][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.534][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[2024-07-17 20:15:30.534][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 20:15:30.534][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.535][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 20:15:30.535][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 20:15:30.535][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.536][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 20:15:30.536][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 20:15:30.537][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.538][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 20:15:30.538][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.539][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 20:15:30.539][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 20:15:30.539][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 20:15:30.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.542][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 20:15:30.543][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.544][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 20:15:30.544][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 20:15:30.544][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.545][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:30.545][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 20:15:30.545][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 20:15:30.546][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 20:15:30.546][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 20:15:30.546][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 20:15:30.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.547][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 20:15:30.547][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 20:15:30.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.548][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 20:15:30.549][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 20:15:30.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.549][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 20:15:30.550][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.550][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 20:15:30.551][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 20:15:30.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.552][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 20:15:30.552][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 20:15:30.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.553][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:30.553][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 20:15:30.558][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 20:15:30.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.559][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 20:15:30.559][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 20:15:30.559][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 20:15:30.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.560][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 20:15:30.561][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.566][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 20:15:30.566][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.566][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.566][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.567][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.567][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.567][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.567][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:30.568][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.568][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.568][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 20:15:30.568][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:30.569][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.570][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.571][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.571][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.571][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.572][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.572][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.572][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 20:15:30.575][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.575][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:30.575][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.576][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.576][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.576][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.577][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.577][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:30.577][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:30.578][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:30.579][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.579][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.580][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.580][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.580][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.581][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.581][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.581][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.582][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 20:15:30.582][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.582][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 20:15:30.583][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.583][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.583][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.583][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.584][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:30.584][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.584][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.585][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 20:15:30.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.585][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.585][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.586][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.586][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.587][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.587][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.588][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.588][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.588][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.588][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.589][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 20:15:30.589][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.589][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:30.590][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.590][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.590][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.590][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.590][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.591][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.591][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:30.591][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.591][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.592][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 20:15:30.592][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.592][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.592][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.593][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.593][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.593][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.594][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.594][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.595][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.595][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.595][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.595][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.596][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.596][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.616][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 20:15:30.616][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 20:15:30.617][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 20:15:30.617][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 20:15:30.617][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 20:15:30.618][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:30.618][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:30.619][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:30.619][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 20:15:30.619][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:30.620][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:30.620][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 20:15:30.620][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:30.621][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:30.621][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 20:15:30.621][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:30.622][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 20:15:30.622][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 20:15:30.623][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 20:15:30.623][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 20:15:30.623][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 20:15:30.624][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 20:15:30.624][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 20:15:30.624][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 20:15:30.625][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 20:15:30.625][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 20:15:30.625][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 20:15:30.626][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 20:15:30.626][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 20:15:30.627][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 20:15:30.627][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 20:15:30.627][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 20:15:30.630][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 20:15:30.630][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 20:15:30.631][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 20:15:30.631][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 20:15:30.631][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 20:15:30.632][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 20:15:30.632][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 20:15:30.632][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 20:15:30.633][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 20:15:30.633][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 20:15:30.633][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 20:15:30.634][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 20:15:30.634][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 20:15:30.634][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 20:15:30.635][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 20:15:30.635][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 20:15:30.635][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 20:15:30.636][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 20:15:30.636][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 20:15:30.637][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 20:15:30.637][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 20:15:30.637][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 20:15:30.638][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 20:15:30.638][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 20:15:30.638][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 20:15:30.639][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 20:15:30.639][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 20:15:30.639][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 20:15:30.640][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 20:15:30.640][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 20:15:30.640][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 20:15:30.641][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 20:15:30.641][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 20:15:30.641][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 20:15:30.642][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 20:15:30.642][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 20:15:30.642][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 20:15:30.643][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 20:15:30.643][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 20:15:30.643][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 20:15:30.644][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 20:15:30.644][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 20:15:30.644][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 20:15:30.645][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 20:15:30.645][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 20:15:30.645][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 20:15:30.646][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 20:15:30.646][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 20:15:30.646][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 20:15:30.647][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 20:15:30.647][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 20:15:30.647][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 20:15:30.648][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:30.648][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.648][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.649][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.649][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[2024-07-17 20:15:30.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.661][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[2024-07-17 20:15:30.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.674][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[2024-07-17 20:15:30.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.677][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[2024-07-17 20:15:30.678][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:30.678][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:30.679][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.679][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.679][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.679][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.680][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.680][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 20:15:30.680][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.680][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.681][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 20:15:30.681][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.681][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.681][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 20:15:30.682][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 20:15:30.683][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 20:15:30.683][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.683][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.686][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.686][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.687][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:30.687][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 20:15:30.687][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.687][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.687][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.687][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.688][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 20:15:30.688][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:30.689][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:30.689][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:30.689][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:30.690][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:30.690][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 20:15:30.691][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:30.691][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:30.691][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:30.692][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:30.692][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 20:15:30.692][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 20:15:30.693][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:30.693][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 20:15:30.693][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.693][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.693][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 20:15:30.693][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 20:15:30.694][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:30.694][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:30.694][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:30.695][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:30.695][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:30.695][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:30.695][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 20:15:30.696][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.696][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-07-17 20:15:30.696][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.697][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.698][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.698][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.698][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:30.699][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.699][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:30.699][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:30.700][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:30.700][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:30.700][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:30.701][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-17 20:15:30.703][biodb::testThat]
biodb.INFO [2024-07-17 20:15:30.703][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-07-17 20:15:30.703][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:30.703][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:30.704][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-17 20:15:30.704][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:30.705][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:30.705][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:30.706][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-17 20:15:30.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 20:15:30.707][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-17 20:15:30.707][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:30.707][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:30.708][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:30.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:30.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:30.712][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.714][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.715][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.715][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.719][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.719][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.720][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.721][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.721][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.722][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.724][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.725][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.725][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.727][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.729][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.729][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.730][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.730][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.731][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.731][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.732][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.733][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.733][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.734][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.734][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.735][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:30.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:30.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.736][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:30.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:30.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:30.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:30.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:30.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.739][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.740][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.741][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.743][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.747][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.747][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.748][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:30.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:30.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:30.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:30.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.751][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:30.751][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.752][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.757][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.758][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:30.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.759][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.760][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.761][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:30.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:30.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.768][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.769][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:30.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.771][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.775][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.776][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.777][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.778][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:30.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.780][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:30.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:30.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:30.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:30.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:30.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:30.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:30.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:30.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:30.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.791][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.792][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:30.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:30.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.798][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.799][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.803][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:30.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.804][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.806][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:30.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:30.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:30.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:30.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:30.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.809][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:30.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:30.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.810][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:30.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.814][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:30.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:30.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:30.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:30.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.820][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.821][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:30.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:30.832][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-17 20:15:30.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:30.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:30.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:30.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:30.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 20:15:30.837][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 20:15:30.838][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 20:15:30.838][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 20:15:30.838][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 20:15:30.838][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.839][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.839][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 20:15:30.841][biodb::testContext]
biodb.INFO [2024-07-17 20:15:30.841][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:30.841][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-07-17 20:15:30.842][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 20:15:30.842][biodb::testContext]
biodb.INFO [2024-07-17 20:15:30.843][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:30.844][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:30.845][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.845][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 20:15:30.846][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.847][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 20:15:30.847][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.848][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 20:15:30.848][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.849][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.DEBUG[2024-07-17 20:15:30.849][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 20:15:30.849][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 20:15:30.849][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.850][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 20:15:30.850][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 20:15:30.851][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.852][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 20:15:30.852][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.853][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 20:15:30.853][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 20:15:30.853][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 20:15:30.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.854][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 20:15:30.854][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.855][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 20:15:30.855][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 20:15:30.856][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 20:15:30.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.856][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:30.857][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 20:15:30.857][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 20:15:30.857][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 20:15:30.857][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 20:15:30.858][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 20:15:30.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.858][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 20:15:30.859][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 20:15:30.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.862][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 20:15:30.862][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 20:15:30.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.863][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 20:15:30.864][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 20:15:30.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.864][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 20:15:30.865][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 20:15:30.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.865][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 20:15:30.866][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 20:15:30.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.867][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 20:15:30.867][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 20:15:30.872][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 20:15:30.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.874][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 20:15:30.874][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 20:15:30.874][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 20:15:30.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.875][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 20:15:30.876][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.876][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 20:15:30.876][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.876][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.877][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.877][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.877][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.877][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.878][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:30.878][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.878][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.878][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:30.879][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:30.880][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.880][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.881][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.881][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.881][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.882][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.882][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.882][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.882][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 20:15:30.883][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.883][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:30.883][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.884][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.884][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.884][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.884][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.885][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.885][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:30.885][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.885][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.885][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 20:15:30.886][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 20:15:30.887][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.887][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.888][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.888][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.889][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.889][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.889][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.889][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 20:15:30.890][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.890][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 20:15:30.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.891][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.891][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.892][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 20:15:30.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.895][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.895][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 20:15:30.895][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.896][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.896][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.896][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.896][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.897][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.897][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.898][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.898][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.898][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.898][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.899][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.899][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 20:15:30.899][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.900][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 20:15:30.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.900][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.901][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.901][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.901][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.901][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.901][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 20:15:30.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.902][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.902][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 20:15:30.902][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.903][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.903][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.903][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.903][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 20:15:30.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.904][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.904][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.904][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.905][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.905][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.905][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.906][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.906][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.906][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.906][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.910][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[2024-07-17 20:15:30.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.916][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.DEBUG[2024-07-17 20:15:30.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.924][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[2024-07-17 20:15:30.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.926][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[2024-07-17 20:15:30.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.929][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 20:15:30.929][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 20:15:30.930][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 20:15:30.930][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 20:15:30.930][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 20:15:30.931][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:30.931][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:30.931][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:30.932][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 20:15:30.932][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:30.933][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:30.933][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 20:15:30.933][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 20:15:30.934][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 20:15:30.934][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 20:15:30.934][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:30.935][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 20:15:30.935][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 20:15:30.935][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 20:15:30.936][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 20:15:30.936][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 20:15:30.937][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 20:15:30.937][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 20:15:30.937][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 20:15:30.938][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 20:15:30.938][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 20:15:30.938][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 20:15:30.939][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 20:15:30.939][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 20:15:30.939][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 20:15:30.940][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 20:15:30.940][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 20:15:30.941][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 20:15:30.941][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 20:15:30.941][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 20:15:30.942][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 20:15:30.942][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 20:15:30.942][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 20:15:30.943][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 20:15:30.943][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 20:15:30.943][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 20:15:30.944][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 20:15:30.944][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 20:15:30.944][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 20:15:30.945][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 20:15:30.945][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 20:15:30.945][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 20:15:30.946][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 20:15:30.946][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 20:15:30.946][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 20:15:30.947][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 20:15:30.947][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 20:15:30.947][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 20:15:30.948][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 20:15:30.951][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 20:15:30.951][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 20:15:30.952][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 20:15:30.952][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 20:15:30.952][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 20:15:30.953][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 20:15:30.953][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 20:15:30.953][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 20:15:30.954][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 20:15:30.954][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 20:15:30.954][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 20:15:30.955][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 20:15:30.955][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 20:15:30.955][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 20:15:30.956][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 20:15:30.956][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 20:15:30.956][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 20:15:30.957][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 20:15:30.957][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 20:15:30.957][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 20:15:30.958][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 20:15:30.958][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 20:15:30.958][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 20:15:30.959][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 20:15:30.959][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 20:15:30.959][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 20:15:30.960][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 20:15:30.960][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 20:15:30.961][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 20:15:30.961][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 20:15:30.961][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 20:15:30.962][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 20:15:30.962][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.962][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.971][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[2024-07-17 20:15:30.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.979][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[2024-07-17 20:15:30.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.985][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[2024-07-17 20:15:30.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 20:15:30.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:30.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:30.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:30.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:30.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:30.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:30.991][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 20:15:30.992][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:30.992][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.992][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.993][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.993][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 20:15:30.993][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.993][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 20:15:30.994][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.994][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.994][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 20:15:30.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 20:15:30.995][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 20:15:30.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.997][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 20:15:30.997][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 20:15:30.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 20:15:30.998][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 20:15:30.998][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:30.998][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 20:15:30.998][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:30.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:30.999][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 20:15:30.999][self$setPropertyValue]
biodb.DEBUG[2024-07-17 20:15:30.999][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 20:15:31.000][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 20:15:31.000][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 20:15:31.000][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 20:15:31.001][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 20:15:31.002][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:31.002][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 20:15:31.002][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:31.003][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:31.005][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:31.006][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:31.006][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 20:15:31.006][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 20:15:31.007][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 20:15:31.007][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 20:15:31.007][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 20:15:31.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 20:15:31.007][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 20:15:31.008][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 20:15:31.008][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 20:15:31.008][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:31.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:31.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:31.009][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 20:15:31.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 20:15:31.010][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 20:15:31.010][biodb::testThat]
biodb.INFO [2024-07-17 20:15:31.010][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-07-17 20:15:31.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 20:15:31.011][biodb::testThat]
biodb.DEBUG[2024-07-17 20:15:31.011][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 20:15:31.012][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-17 20:15:31.012][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-17 20:15:31.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.014][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:31.014][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.014][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:31.015][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:31.015][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:31.015][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:31.015][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:31.016][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:31.016][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-07-17 20:15:31.016][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-17 20:15:31.017][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:31.017][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:31.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 20:15:31.018][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 20:15:31.019][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-17 20:15:31.019][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:31.020][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:31.020][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:31.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:31.024][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.025][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.027][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.027][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.029][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.029][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.030][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.031][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.031][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.037][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.038][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.038][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.040][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.040][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.041][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.042][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.042][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.044][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.044][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.044][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.046][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.046][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.046][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.047][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.048][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.048][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.049][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.050][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.050][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.054][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.054][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.056][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.056][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.056][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.057][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.058][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.059][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.060][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.060][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.060][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.061][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:31.062][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.065][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.065][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:31.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.069][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.070][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.072][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.073][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.074][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.084][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.087][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.095][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.108][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.116][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.118][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.118][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.119][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.120][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.127][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:31.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.131][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:31.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.138][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.139][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.147][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 20:15:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.149][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.150][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.155][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:31.155][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:31.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:31.159][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-17 20:15:31.159][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 20:15:31.159][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.160][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 20:15:31.160][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-17 20:15:31.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 20:15:31.161][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-17 20:15:31.161][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 20:15:31.162][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 20:15:31.162][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 20:15:31.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:31.166][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.167][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.168][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.169][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.169][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.170][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.171][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.172][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.173][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.174][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.175][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.176][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.177][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.179][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.179][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.180][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.181][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.181][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.185][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.186][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.186][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.188][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.188][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.189][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.190][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.190][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.192][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.192][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.193][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.194][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.197][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.198][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.198][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.200][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.200][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.201][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.202][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.202][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.203][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.204][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:31.204][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.205][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 20:15:31.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.209][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.210][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.211][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 20:15:31.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.216][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.217][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 20:15:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 20:15:31.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 20:15:31.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 20:15:31.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.228][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 20:15:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.230][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.231][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 20:15:31.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.235][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 20:15:31.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 20:15:31.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 20:15:31.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 20:15:31.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.248][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 20:15:31.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 20:15:31.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.258][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 20:15:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.260][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.261][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 20:15:31.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.262][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.264][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 20:15:31.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 20:15:31.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.265][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.271][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 20:15:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 20:15:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 20:15:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 20:15:31.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.278][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.279][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 20:15:31.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 20:15:31.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 20:15:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.287][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-17 20:15:31.288][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.290][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.291][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.291][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:31.292][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:31.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.295][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[2024-07-17 20:15:31.296][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 20:15:31.297][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-17 20:15:31.297][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-17 20:15:31.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.305][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:31.306][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.306][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:31.306][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:31.307][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:31.307][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:31.307][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:31.308][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:31.308][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:31.308][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.313][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.314][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.315][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.316][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:31.316][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:31.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:31.320][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.321][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.322][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.323][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.325][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.327][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-17 20:15:31.327][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:31.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 20:15:31.334][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 20:15:31.335][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-17 20:15:31.335][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-17 20:15:31.336][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.336][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.336][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 20:15:31.337][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 20:15:31.337][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 20:15:31.337][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 20:15:31.338][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 20:15:31.338][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 20:15:31.338][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 20:15:31.338][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 20:15:31.339][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 20:15:31.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.340][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.346][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-17 20:15:31.346][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-07-17 20:15:31.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 20:15:31.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.352][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.355][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 20:15:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 20:15:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 20:15:31.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 20:15:31.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 20:15:31.357][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 20:15:31.357][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 20:15:31.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 20:15:31.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 20:15:31.365][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 20:15:31.366][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 20:15:31.366][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 20:15:31.367][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 20:15:31.367][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 20:15:31.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 20:15:31.368][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 20:15:31.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 20:15:31.368][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 20:15:31.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  2.692   0.159   3.995

CHECK results for biodbHmdb on kjohnson3

Summary

Command output

Installation output

Tests output

Example timings