Multiple platform build/check report for BioC 3.20 - CHECK results for biodbHmdb on kjohnson1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4746
palomino8	Windows Server 2022 Datacenter	x64	4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"	4489
merida1	macOS 12.7.5 Monterey	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4517
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4469
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4387
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 kjohnson1

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: 1.12.0

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_1.12.0.tar.gz

StartedAt: 2025-01-14 12:35:02 -0500 (Tue, 14 Jan 2025)

EndedAt: 2025-01-14 12:36:17 -0500 (Tue, 14 Jan 2025)

EllapsedTime: 75.6 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.2 (2024-10-31)
* 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 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* 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-1500.0.40.1)’
* 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-1500.0.40.1)’
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 4.4.2 (2024-10-31) -- "Pile of Leaves"
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 [2025-01-14 12:35:38.900][biodb::testContext]
biodb.INFO [2025-01-14 12:35:38.904][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:35:38.905][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-14 12:35:38.906][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:35:38.907][biodb::testContext]
biodb.INFO [2025-01-14 12:35:38.909][biodb::testThat]
biodb.INFO [2025-01-14 12:35:38.910][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-14 12:35:38.911][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:38.911][biodb::testThat]
biodb.INFO [2025-01-14 12:35:39.037][biodb::testContext]
biodb.INFO [2025-01-14 12:35:39.038][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:35:39.039][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-14 12:35:39.040][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:35:39.041][biodb::testContext]
biodb.INFO [2025-01-14 12:35:39.052][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:35:39.055][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 12:35:39.064][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:35:39.066][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 12:35:39.067][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.071][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 12:35:39.099][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.102][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 12:35:39.103][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.106][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 12:35:39.107][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 12:35:39.108][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 12:35:39.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.111][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 12:35:39.112][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 12:35:39.113][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.116][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 12:35:39.117][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 12:35:39.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.120][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 12:35:39.120][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 12:35:39.121][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 12:35:39.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.124][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 12:35:39.125][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.128][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 12:35:39.129][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 12:35:39.130][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 12:35:39.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.133][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:35:39.133][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 12:35:39.134][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 12:35:39.135][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 12:35:39.136][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 12:35:39.137][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 12:35:39.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.140][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 12:35:39.141][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 12:35:39.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.144][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 12:35:39.145][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 12:35:39.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.148][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 12:35:39.148][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 12:35:39.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.152][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 12:35:39.152][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 12:35:39.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.155][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 12:35:39.156][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 12:35:39.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.160][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:35:39.161][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 12:35:39.177][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 12:35:39.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.181][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 12:35:39.182][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 12:35:39.183][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 12:35:39.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.190][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 12:35:39.226][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.241][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-14 12:35:39.243][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:35:39.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.247][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.248][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:35:39.249][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:35:39.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.250][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 12:35:39.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:35:39.252][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:35:39.254][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:35:39.255][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.257][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:35:39.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.258][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.267][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.268][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.269][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.269][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.270][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.271][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.272][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 12:35:39.274][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.275][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:35:39.276][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.277][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:35:39.278][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.279][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.280][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.281][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.282][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:35:39.283][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:35:39.283][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.284][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 12:35:39.285][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:35:39.286][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.287][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.288][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:35:39.288][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:35:39.288][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:35:39.288][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:35:39.288][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:35:39.289][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:35:39.289][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.290][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.291][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:35:39.292][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.292][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.293][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.294][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.295][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.296][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.296][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.297][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.298][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 12:35:39.300][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.301][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-14 12:35:39.302][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.303][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:35:39.304][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.304][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.306][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.307][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:35:39.308][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:35:39.309][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.309][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 12:35:39.310][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:35:39.311][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.313][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.314][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:35:39.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.316][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:35:39.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.318][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.319][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.319][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.320][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.321][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.322][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.322][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.323][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 12:35:39.325][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.326][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:35:39.327][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.328][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:35:39.329][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.329][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.330][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.331][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.332][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:35:39.332][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:35:39.333][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.334][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 12:35:39.335][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:35:39.336][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.337][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.337][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.338][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:35:39.339][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.340][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.340][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:35:39.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.342][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.343][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.344][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.344][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.346][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.347][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.352][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:35:39.353][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.357][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[2025-01-14 12:35:39.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.361][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[2025-01-14 12:35:39.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.368][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".
biodb.DEBUG[2025-01-14 12:35:39.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.375][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[2025-01-14 12:35:39.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.386][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[2025-01-14 12:35:39.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.389][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[2025-01-14 12:35:39.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.422][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 12:35:39.428][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 12:35:39.430][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 12:35:39.431][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 12:35:39.433][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 12:35:39.434][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:35:39.435][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 12:35:39.436][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 12:35:39.437][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 12:35:39.438][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:35:39.440][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:35:39.441][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 12:35:39.442][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 12:35:39.443][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 12:35:39.444][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 12:35:39.446][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:35:39.447][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 12:35:39.448][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 12:35:39.450][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 12:35:39.451][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 12:35:39.452][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 12:35:39.453][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 12:35:39.455][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 12:35:39.456][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 12:35:39.458][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 12:35:39.459][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 12:35:39.460][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 12:35:39.461][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 12:35:39.463][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 12:35:39.464][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 12:35:39.465][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 12:35:39.466][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 12:35:39.467][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 12:35:39.468][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 12:35:39.469][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 12:35:39.471][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 12:35:39.472][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 12:35:39.473][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 12:35:39.474][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 12:35:39.475][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 12:35:39.476][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 12:35:39.477][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 12:35:39.479][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 12:35:39.480][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 12:35:39.481][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 12:35:39.482][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 12:35:39.483][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 12:35:39.484][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 12:35:39.485][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 12:35:39.487][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 12:35:39.488][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 12:35:39.489][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 12:35:39.490][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 12:35:39.491][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 12:35:39.492][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 12:35:39.493][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 12:35:39.495][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 12:35:39.496][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 12:35:39.497][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 12:35:39.498][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 12:35:39.499][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 12:35:39.500][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 12:35:39.501][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 12:35:39.503][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 12:35:39.504][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 12:35:39.505][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 12:35:39.506][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 12:35:39.507][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 12:35:39.508][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 12:35:39.509][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 12:35:39.510][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 12:35:39.512][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 12:35:39.513][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 12:35:39.514][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 12:35:39.515][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 12:35:39.516][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 12:35:39.517][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 12:35:39.518][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 12:35:39.519][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 12:35:39.521][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 12:35:39.522][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 12:35:39.523][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 12:35:39.524][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 12:35:39.530][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 12:35:39.532][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:35:39.536][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:35:39.537][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.539][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.549][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[2025-01-14 12:35:39.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.559][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[2025-01-14 12:35:39.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.614][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[2025-01-14 12:35:39.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:35:39.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.655][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[2025-01-14 12:35:39.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.659][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[2025-01-14 12:35:39.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.664][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[2025-01-14 12:35:39.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.670][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[2025-01-14 12:35:39.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:35:39.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.676][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[2025-01-14 12:35:39.678][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-14 12:35:39.690][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:35:39.692][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.693][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.694][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.695][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:35:39.696][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.697][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-14 12:35:39.698][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.698][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.699][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 12:35:39.700][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:35:39.701][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.702][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-14 12:35:39.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-14 12:35:39.704][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-14 12:35:39.705][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 12:35:39.706][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:35:39.706][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-14 12:35:39.706][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-14 12:35:39.707][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 12:35:39.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.709][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:35:39.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:35:39.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:35:39.711][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:35:39.712][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:35:39.712][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-14 12:35:39.713][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.715][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 12:35:39.716][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:35:39.723][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-14 12:35:39.725][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:35:39.726][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:35:39.727][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:35:39.729][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:35:39.760][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:35:39.762][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-14 12:35:39.767][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:35:39.772][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:35:39.777][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:35:39.778][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:35:39.779][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-14 12:35:39.780][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-14 12:35:39.781][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:35:39.781][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-14 12:35:39.782][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:35:39.783][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:35:39.784][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-14 12:35:39.785][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-14 12:35:39.786][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:35:39.813][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:35:39.815][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:35:39.816][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:35:39.817][private$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[2025-01-14 12:35:39.818][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:35:39.819][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-14 12:35:39.831][biodb::testThat]
biodb.INFO [2025-01-14 12:35:39.832][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-14 12:35:39.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:39.834][biodb::testThat]
biodb.TRACE[2025-01-14 12:35:39.840][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[2025-01-14 12:35:39.843][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:35:39.847][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:35:39.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:35:39.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:39.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:39.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:39.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:39.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:39.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:35:39.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:39.885][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:39.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.887][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:39.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:39.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.905][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:39.906][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:39.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.907][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.937][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:39.938][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:39.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.939][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.941][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:39.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:39.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.944][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:39.945][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:39.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:39.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:39.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:39.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:39.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.953][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.957][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:39.958][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:39.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.960][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:39.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:39.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:39.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:39.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.981][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:39.981][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:39.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.983][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.984][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.988][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:39.988][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:39.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.990][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.991][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:39.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.995][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:39.996][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:39.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:39.997][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:39.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.002][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.004][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.011][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.016][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.026][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.030][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.033][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.037][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.038][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.040][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.046][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.051][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:35:40.052][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.054][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:35:40.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.106][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.110][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.113][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.117][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.120][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.124][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.160][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.166][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.180][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.183][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.234][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.260][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.273][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.276][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.290][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:35:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.303][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:35:40.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.355][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:40.386][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-14 12:35:40.389][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.393][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:40.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.396][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:40.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:40.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:40.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.433][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.464][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.470][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.495][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.497][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.529][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.530][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.531][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.532][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.554][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.555][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.556][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.569][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.573][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.576][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.580][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.581][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.582][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.606][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.607][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.608][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:40.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.625][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.634][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.635][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.665][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.667][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:40.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.691][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.692][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.693][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.694][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:40.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:40.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.717][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:40.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:40.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.737][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.743][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.744][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.746][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:40.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.772][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:40.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.785][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.789][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.802][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.803][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.805][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.821][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.825][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.828][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.829][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.831][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:40.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.844][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.855][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.856][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.858][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:40.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.884][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.885][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.887][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:40.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:40.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.913][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.914][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.916][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:40.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.951][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:40.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.965][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.976][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.977][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.979][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.980][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:40.993][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:40.994][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:40.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:40.996][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.002][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.003][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.010][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.011][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.013][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.022][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.027][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.028][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.030][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.036][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.037][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.044][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.045][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.047][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.052][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.053][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.055][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.060][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.061][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.062][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.068][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.069][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.071][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.079][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.084][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.085][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.086][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.091][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.094][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.099][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.102][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.116][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.117][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.119][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.125][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.126][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.128][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.134][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.135][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.143][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.145][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 12:35:41.153][biodb::testThat]
biodb.INFO [2025-01-14 12:35:41.154][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-14 12:35:41.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:41.156][biodb::testThat]
biodb.DEBUG[2025-01-14 12:35:41.170][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-14 12:35:41.180][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:35:41.186][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.188][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:35:41.190][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-14 12:35:41.191][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 12:35:41.194][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-14 12:35:41.196][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:35:41.221][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:35:41.222][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:35:41.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:35:41.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:35:41.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:35:41.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:35:41.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:35:41.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:35:41.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:35:41.239][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.240][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.242][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.247][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.248][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.250][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.251][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.255][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.256][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.257][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.259][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.262][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.263][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.272][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.274][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.280][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.284][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.285][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.293][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.295][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.299][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.300][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.302][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.307][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.308][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.310][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.314][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.315][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.318][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.321][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.322][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.324][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.328][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.331][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.335][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.336][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.337][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.344][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.349][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.350][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.352][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.356][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.357][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.359][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.360][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.365][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.366][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.371][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:35:41.372][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.373][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.375][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:35:41.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.398][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.401][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:35:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.405][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.408][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.411][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:35:41.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:35:41.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:35:41.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.434][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:35:41.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.445][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:35:41.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.458][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:35:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.465][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.468][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.471][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:35:41.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:35:41.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:35:41.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:35:41.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.503][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:35:41.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:35:41.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.538][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.541][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.544][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:35:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.548][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.551][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.554][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.557][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.564][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:35:41.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:35:41.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.567][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:35:41.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.580][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:35:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:35:41.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.603][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.609][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:35:41.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:35:41.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:35:41.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.638][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-14 12:35:41.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-14 12:35:41.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-14 12:35:41.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-14 12:35:41.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-14 12:35:41.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-14 12:35:41.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-14 12:35:41.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 12:35:41.657][biodb::testThat]
biodb.INFO [2025-01-14 12:35:41.658][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-14 12:35:41.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:41.659][biodb::testThat]
biodb.TRACE[2025-01-14 12:35:41.662][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.665][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.666][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-14 12:35:41.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.707][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-14 12:35:41.708][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-14 12:35:41.709][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-14 12:35:41.710][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-14 12:35:41.711][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.713][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.714][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:35:41.715][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.716][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:35:41.717][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:35:41.718][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:35:41.719][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:35:41.720][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:35:41.721][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:35:41.722][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:35:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:41.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:41.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.737][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:35:41.737][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:35:41.738][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-14 12:35:41.751][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.752][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.754][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.755][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-14 12:35:41.776][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.780][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.784][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.791][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[2025-01-14 12:35:41.843][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-14 12:35:41.844][private$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[2025-01-14 12:35:41.845][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-14 12:35:41.859][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.861][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.862][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:35:41.864][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.865][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:35:41.886][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:35:41.887][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:35:41.888][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:35:41.889][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:35:41.890][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:35:41.891][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:35:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.896][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.900][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:35:41.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:35:41.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.907][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:35:41.907][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:35:41.908][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-14 12:35:41.922][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.923][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.925][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.927][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-14 12:35:41.942][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.949][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.956][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-14 12:35:41.957][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-14 12:35:41.958][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-14 12:35:41.959][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-14 12:35:41.961][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.962][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.963][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:35:41.964][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:41.965][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:35:41.966][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:35:41.967][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:35:41.968][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:35:41.969][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:35:41.970][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:35:41.971][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:35:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.976][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:35:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:41.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:41.986][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:35:41.987][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:35:41.988][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-14 12:35:42.005][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.006][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-14 12:35:42.007][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:42.008][biodb::testThat]
biodb.TRACE[2025-01-14 12:35:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:42.055][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-14 12:35:42.056][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-14 12:35:42.057][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-14 12:35:42.059][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:42.060][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:42.062][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:35:42.063][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:35:42.064][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:35:42.065][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:35:42.066][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:35:42.067][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:35:42.068][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:35:42.069][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:35:42.070][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:35:42.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:35:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:35:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:35:42.085][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:35:42.086][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-14 12:35:42.102][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.103][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-14 12:35:42.104][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:42.105][biodb::testThat]
biodb.TRACE[2025-01-14 12:35:42.127][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.134][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:42.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:42.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:42.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:42.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.192][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 12:35:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.201][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:42.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 12:35:42.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:35:42.206][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:42.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 12:35:42.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:35:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 12:35:42.218][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.219][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-14 12:35:42.220][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:42.221][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.231][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.232][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-14 12:35:42.233][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:42.235][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.244][biodb::testThat]
biodb.INFO [2025-01-14 12:35:42.245][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-14 12:35:42.245][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:35:42.246][biodb::testThat]
biodb.DEBUG[2025-01-14 12:35:42.250][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-14 12:36:02.006][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-14 12:36:02.205][biodb::testThat]
biodb.INFO [2025-01-14 12:36:02.207][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-14 12:36:02.208][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:02.209][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:07.570][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-14 12:36:07.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:07.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:07.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.763][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:07.764][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:07.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.766][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.767][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:07.768][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:07.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.769][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 12:36:07.771][biodb::testThat]
biodb.INFO [2025-01-14 12:36:07.772][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-14 12:36:07.773][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:07.774][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:07.777][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-14 12:36:07.834][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:36:07.836][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:07.838][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:36:07.855][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-14 12:36:07.857][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-14 12:36:07.858][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-14 12:36:07.859][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:36:07.860][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:07.862][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:36:07.863][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:36:07.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:07.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:07.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:07.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:07.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:07.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:07.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:36:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:07.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:07.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.880][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:07.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:07.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:07.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:07.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:07.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:07.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:07.948][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-14 12:36:07.949][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-14 12:36:07.967][biodb::testThat]
biodb.INFO [2025-01-14 12:36:07.968][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-14 12:36:07.969][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:07.970][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:07.980][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-14 12:36:07.982][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-14 12:36:07.983][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:36:07.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:07.986][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:36:07.988][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-14 12:36:07.989][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-14 12:36:07.990][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-14 12:36:07.991][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:36:07.993][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:07.994][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:36:07.995][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:36:07.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:07.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:07.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:36:08.010][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.013][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:08.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:08.038][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-14 12:36:08.038][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-14 12:36:08.039][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-14 12:36:08.063][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.065][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-14 12:36:08.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:08.066][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.091][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.092][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-14 12:36:08.094][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:08.095][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:08.098][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.099][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.100][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:08.102][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.103][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:08.104][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:08.105][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:08.106][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:08.107][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-14 12:36:08.116][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.117][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-14 12:36:08.118][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:08.119][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:08.121][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.124][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:08.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.126][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:08.128][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:08.129][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:08.130][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:08.131][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-14 12:36:08.141][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:08.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:08.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.145][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.146][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:08.147][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:08.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.149][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.149][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.150][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.152][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 12:36:08.153][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 12:36:08.154][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-14 12:36:08.162][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-14 12:36:08.164][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 12:36:08.164][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.166][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.167][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.168][FUN] Functions in observer BiodbConfig: [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 [2025-01-14 12:36:08.172][biodb::testContext]
biodb.INFO [2025-01-14 12:36:08.173][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:36:08.174][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-14 12:36:08.175][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:36:08.176][biodb::testContext]
biodb.INFO [2025-01-14 12:36:08.188][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:36:08.190][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 12:36:08.195][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:08.196][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 12:36:08.197][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.201][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 12:36:08.202][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.206][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 12:36:08.207][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.210][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 12:36:08.210][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 12:36:08.211][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 12:36:08.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.214][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[2025-01-14 12:36:08.215][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 12:36:08.216][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 12:36:08.217][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.220][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 12:36:08.221][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 12:36:08.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.223][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[2025-01-14 12:36:08.224][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 12:36:08.225][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 12:36:08.225][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 12:36:08.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.228][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 12:36:08.229][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.232][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 12:36:08.233][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 12:36:08.234][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 12:36:08.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.238][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:36:08.239][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 12:36:08.239][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 12:36:08.240][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 12:36:08.241][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 12:36:08.242][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 12:36:08.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.245][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 12:36:08.246][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 12:36:08.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.249][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 12:36:08.250][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 12:36:08.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.253][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 12:36:08.254][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 12:36:08.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.257][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 12:36:08.258][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 12:36:08.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.262][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 12:36:08.263][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 12:36:08.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.266][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:36:08.267][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 12:36:08.281][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 12:36:08.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.285][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 12:36:08.286][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 12:36:08.287][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 12:36:08.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.290][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 12:36:08.292][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.316][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-14 12:36:08.318][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.319][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:08.320][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.320][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.321][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.322][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.323][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:36:08.324][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:08.325][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.326][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 12:36:08.326][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:08.327][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.328][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.329][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:08.329][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:36:08.329][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:36:08.329][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:36:08.329][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:36:08.330][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:08.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.332][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:08.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.335][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.336][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.336][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.337][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.338][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.339][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.340][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 12:36:08.342][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.342][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:36:08.343][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.344][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:08.345][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.346][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.347][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.347][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.348][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:36:08.349][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:08.350][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.351][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 12:36:08.352][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:08.352][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.353][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.354][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:08.354][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:36:08.354][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:36:08.354][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:36:08.354][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:36:08.355][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:08.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.357][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:08.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.359][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.361][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.364][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.365][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.366][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 12:36:08.368][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.369][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-14 12:36:08.370][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:08.371][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.372][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.373][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.374][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.375][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:36:08.376][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:08.377][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.378][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 12:36:08.379][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:08.380][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.381][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.382][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.383][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:08.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.386][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:08.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.388][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.389][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.390][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.390][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.391][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.392][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.393][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 12:36:08.395][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.396][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:36:08.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.398][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:08.398][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.406][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.407][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.409][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.410][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:36:08.411][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:08.412][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.412][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 12:36:08.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:08.414][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.415][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.416][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.417][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:08.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.419][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:08.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.421][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.422][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.423][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.423][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.425][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.427][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:08.427][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.496][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 12:36:08.497][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 12:36:08.506][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 12:36:08.507][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 12:36:08.509][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 12:36:08.510][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:36:08.511][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 12:36:08.512][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 12:36:08.514][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 12:36:08.515][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:36:08.516][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:36:08.517][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 12:36:08.518][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 12:36:08.520][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 12:36:08.521][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 12:36:08.522][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:36:08.523][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 12:36:08.525][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 12:36:08.526][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 12:36:08.527][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 12:36:08.528][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 12:36:08.530][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 12:36:08.531][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 12:36:08.532][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 12:36:08.533][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 12:36:08.534][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 12:36:08.536][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 12:36:08.537][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 12:36:08.538][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 12:36:08.539][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 12:36:08.541][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 12:36:08.542][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 12:36:08.543][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 12:36:08.544][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 12:36:08.545][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 12:36:08.547][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 12:36:08.548][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 12:36:08.549][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 12:36:08.550][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 12:36:08.552][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 12:36:08.553][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 12:36:08.554][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 12:36:08.555][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 12:36:08.556][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 12:36:08.558][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 12:36:08.559][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 12:36:08.560][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 12:36:08.561][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 12:36:08.562][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 12:36:08.564][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 12:36:08.565][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 12:36:08.566][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 12:36:08.567][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 12:36:08.569][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 12:36:08.570][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 12:36:08.571][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 12:36:08.572][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 12:36:08.573][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 12:36:08.575][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 12:36:08.576][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 12:36:08.577][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 12:36:08.579][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 12:36:08.580][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 12:36:08.581][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 12:36:08.583][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 12:36:08.584][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 12:36:08.585][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 12:36:08.586][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 12:36:08.587][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 12:36:08.589][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 12:36:08.590][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 12:36:08.591][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 12:36:08.592][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 12:36:08.593][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 12:36:08.602][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 12:36:08.604][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 12:36:08.606][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 12:36:08.607][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 12:36:08.608][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 12:36:08.609][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 12:36:08.611][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 12:36:08.612][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 12:36:08.613][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 12:36:08.615][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 12:36:08.617][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:36:08.618][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:08.618][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.620][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.652][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[2025-01-14 12:36:08.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.662][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[2025-01-14 12:36:08.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.667][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[2025-01-14 12:36:08.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:08.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:08.725][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-14 12:36:08.726][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:08.728][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.729][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.730][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.731][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:08.732][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.733][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-14 12:36:08.734][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.734][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.735][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 12:36:08.736][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:08.737][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.738][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-14 12:36:08.738][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-14 12:36:08.739][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-14 12:36:08.740][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:08.741][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:08.741][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-14 12:36:08.741][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-14 12:36:08.742][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 12:36:08.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:08.745][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:08.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:08.747][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:08.747][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:36:08.747][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-14 12:36:08.748][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.749][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.750][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:08.750][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:08.752][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-14 12:36:08.753][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:36:08.754][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:36:08.756][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:36:08.757][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:36:08.760][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:08.761][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-14 12:36:08.762][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:08.764][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:36:08.765][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:08.766][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:08.767][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-14 12:36:08.768][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-14 12:36:08.769][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:36:08.769][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-14 12:36:08.769][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:08.770][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:08.771][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-14 12:36:08.772][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-14 12:36:08.773][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:08.798][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:36:08.799][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:08.800][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:08.801][private$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[2025-01-14 12:36:08.802][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:08.803][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-14 12:36:08.805][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.806][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-14 12:36:08.806][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:08.807][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:08.811][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.813][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.814][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:08.815][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.816][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:08.817][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:08.818][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:08.819][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:08.820][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:36:08.823][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-14 12:36:08.829][biodb::testThat]
biodb.INFO [2025-01-14 12:36:08.830][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-14 12:36:08.831][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:08.832][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:08.833][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-14 12:36:08.834][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:36:08.836][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:08.837][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:36:08.839][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-14 12:36:08.840][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 12:36:08.843][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-14 12:36:08.845][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:36:08.846][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:36:08.848][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:36:08.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:08.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:08.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:08.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:08.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:08.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:08.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:36:08.862][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.864][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.865][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:08.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.870][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.871][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.872][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.873][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:08.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.877][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:08.878][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:08.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.879][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:08.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:08.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.884][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:08.885][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:08.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.886][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:08.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:08.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:08.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:08.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.897][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:08.898][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:08.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.906][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:08.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:08.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.912][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:08.913][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:08.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.915][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.916][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:08.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:08.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.919][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:08.920][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:08.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.921][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.926][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:08.927][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:08.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.928][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.933][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:08.934][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:08.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.935][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.940][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:08.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:08.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.942][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.946][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:08.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:08.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.949][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:08.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.953][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:08.954][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:08.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.955][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:08.960][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:08.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.962][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:08.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.966][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:08.967][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:08.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.968][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.973][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:08.974][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:08.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.975][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:08.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:08.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:08.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:08.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.982][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:08.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:08.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.988][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:08.989][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:08.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.990][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:08.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.014][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.017][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.020][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:09.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:09.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.058][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:09.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:09.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.075][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.078][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.081][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:09.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:09.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.097][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:09.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:09.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:09.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:09.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:09.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:09.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:09.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:09.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.133][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.162][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.172][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.176][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.179][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:09.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:09.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:09.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:09.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.196][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:09.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:09.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.213][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:09.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:09.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:09.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.234][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.247][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:09.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:09.270][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-14 12:36:09.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 12:36:09.297][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 12:36:09.298][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-14 12:36:09.299][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-14 12:36:09.300][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 12:36:09.300][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.302][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.303][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-14 12:36:09.308][biodb::testContext]
biodb.INFO [2025-01-14 12:36:09.309][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:36:09.310][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-14 12:36:09.311][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 12:36:09.312][biodb::testContext]
biodb.INFO [2025-01-14 12:36:09.316][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:36:09.318][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 12:36:09.323][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:09.324][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 12:36:09.325][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.328][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 12:36:09.329][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.332][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 12:36:09.333][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.336][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 12:36:09.337][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 12:36:09.337][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 12:36:09.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.340][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 12:36:09.341][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 12:36:09.342][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.345][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 12:36:09.346][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 12:36:09.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.349][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 12:36:09.350][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 12:36:09.350][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 12:36:09.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.353][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 12:36:09.354][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.357][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 12:36:09.358][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 12:36:09.359][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 12:36:09.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.361][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[2025-01-14 12:36:09.362][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:36:09.363][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 12:36:09.364][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 12:36:09.365][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 12:36:09.365][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 12:36:09.366][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 12:36:09.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.369][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 12:36:09.370][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 12:36:09.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.373][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 12:36:09.374][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 12:36:09.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.377][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 12:36:09.378][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 12:36:09.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.380][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[2025-01-14 12:36:09.381][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 12:36:09.382][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 12:36:09.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.384][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 12:36:09.392][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 12:36:09.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.397][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 12:36:09.398][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 12:36:09.413][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 12:36:09.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.417][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 12:36:09.418][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 12:36:09.419][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 12:36:09.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.422][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 12:36:09.424][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.440][self$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[2025-01-14 12:36:09.441][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.442][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:09.443][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.444][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.446][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.446][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:36:09.447][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:09.448][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.449][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 12:36:09.450][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:09.451][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:36:09.452][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:36:09.453][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:09.454][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.455][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.456][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:09.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.457][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.458][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.459][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.460][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.461][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.462][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.463][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.464][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 12:36:09.466][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.467][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:36:09.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.469][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:09.469][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.472][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.473][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:36:09.473][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:09.474][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.475][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 12:36:09.476][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:09.477][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 12:36:09.478][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 12:36:09.479][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:09.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.481][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.482][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:09.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.483][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.484][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.485][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.486][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.487][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.487][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.488][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.489][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 12:36:09.491][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.492][self$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[2025-01-14 12:36:09.493][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:09.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.495][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.504][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.507][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 12:36:09.508][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:09.509][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.510][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 12:36:09.511][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:09.511][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.513][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.514][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.516][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:09.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:09.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.522][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.523][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.524][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.525][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.526][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 12:36:09.528][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.529][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 12:36:09.530][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.531][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:09.531][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.532][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.533][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.534][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.535][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 12:36:09.536][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:09.536][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.537][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 12:36:09.538][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:09.539][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.541][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.542][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.543][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 12:36:09.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.546][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:09.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.549][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.550][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.551][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.552][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.552][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.554][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:09.554][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.559][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[2025-01-14 12:36:09.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.605][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[2025-01-14 12:36:09.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.609][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[2025-01-14 12:36:09.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.612][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[2025-01-14 12:36:09.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.616][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[2025-01-14 12:36:09.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.628][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 12:36:09.630][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 12:36:09.631][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 12:36:09.632][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 12:36:09.633][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 12:36:09.635][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:36:09.636][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 12:36:09.637][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 12:36:09.638][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 12:36:09.639][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:36:09.641][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:36:09.642][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 12:36:09.643][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 12:36:09.644][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 12:36:09.645][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 12:36:09.646][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:36:09.647][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 12:36:09.649][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 12:36:09.651][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 12:36:09.652][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 12:36:09.654][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 12:36:09.655][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 12:36:09.657][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 12:36:09.658][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 12:36:09.660][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 12:36:09.661][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 12:36:09.662][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 12:36:09.663][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 12:36:09.665][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 12:36:09.666][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 12:36:09.667][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 12:36:09.669][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 12:36:09.670][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 12:36:09.671][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 12:36:09.672][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 12:36:09.674][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 12:36:09.675][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 12:36:09.676][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 12:36:09.677][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 12:36:09.679][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 12:36:09.680][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 12:36:09.681][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 12:36:09.682][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 12:36:09.683][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 12:36:09.685][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 12:36:09.686][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 12:36:09.688][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 12:36:09.689][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 12:36:09.691][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 12:36:09.699][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 12:36:09.701][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 12:36:09.702][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 12:36:09.704][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 12:36:09.705][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 12:36:09.706][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 12:36:09.708][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 12:36:09.709][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 12:36:09.710][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 12:36:09.711][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 12:36:09.713][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 12:36:09.714][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 12:36:09.715][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 12:36:09.716][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 12:36:09.718][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 12:36:09.719][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 12:36:09.721][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 12:36:09.722][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 12:36:09.723][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 12:36:09.724][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 12:36:09.726][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 12:36:09.727][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 12:36:09.728][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 12:36:09.729][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 12:36:09.730][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 12:36:09.732][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 12:36:09.733][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 12:36:09.734][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 12:36:09.735][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 12:36:09.736][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 12:36:09.737][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 12:36:09.739][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 12:36:09.740][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 12:36:09.741][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 12:36:09.742][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 12:36:09.744][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 12:36:09.745][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 12:36:09.746][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.747][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 12:36:09.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:09.845][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-14 12:36:09.847][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:09.848][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.849][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.850][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.851][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 12:36:09.852][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.853][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-14 12:36:09.854][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.854][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.855][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 12:36:09.856][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 12:36:09.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.858][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-14 12:36:09.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-14 12:36:09.859][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-14 12:36:09.860][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 12:36:09.861][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 12:36:09.861][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-14 12:36:09.861][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-14 12:36:09.862][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 12:36:09.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.865][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 12:36:09.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 12:36:09.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 12:36:09.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 12:36:09.868][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:36:09.868][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-14 12:36:09.869][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.869][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.870][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 12:36:09.871][self$setPropertyValue]
biodb.DEBUG[2025-01-14 12:36:09.872][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-14 12:36:09.873][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 12:36:09.881][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 12:36:09.883][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 12:36:09.885][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 12:36:09.888][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:09.889][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-14 12:36:09.890][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:09.891][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:36:09.893][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:09.893][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:09.895][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-14 12:36:09.896][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-14 12:36:09.897][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-14 12:36:09.897][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-14 12:36:09.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 12:36:09.898][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 12:36:09.899][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-14 12:36:09.900][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-14 12:36:09.901][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-14 12:36:09.918][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:36:09.920][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:09.920][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:09.922][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-14 12:36:09.923][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 12:36:09.923][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-14 12:36:09.925][biodb::testThat]
biodb.INFO [2025-01-14 12:36:09.926][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-14 12:36:09.927][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 12:36:09.927][biodb::testThat]
biodb.DEBUG[2025-01-14 12:36:09.929][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-14 12:36:09.930][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-14 12:36:09.931][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-14 12:36:09.934][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:09.935][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:09.937][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:09.938][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:09.939][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:09.940][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:09.941][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:09.942][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:09.943][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:36:09.944][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:36:09.945][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-14 12:36:09.946][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-14 12:36:09.947][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:36:09.949][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:09.950][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:36:09.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-14 12:36:09.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 12:36:09.955][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-14 12:36:09.956][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:36:09.957][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:36:09.958][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:36:09.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:09.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:09.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:09.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:09.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:09.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:09.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:36:09.973][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.974][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.976][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:09.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:09.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.988][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.989][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.991][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.992][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:09.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.996][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.997][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:09.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:09.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.003][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.004][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.006][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.010][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.012][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.016][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.017][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.023][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.024][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.025][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.030][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.031][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.032][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.037][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.037][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.043][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.044][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.046][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.047][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.050][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.051][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.057][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.058][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.059][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.064][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.066][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.088][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.098][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.100][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.104][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.105][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.107][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.108][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.112][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.113][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.114][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.119][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:10.120][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.121][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.123][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:10.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.140][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.176][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.197][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.205][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.223][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.266][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.301][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.304][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.311][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.314][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.318][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.321][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.331][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:10.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.345][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:10.409][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-14 12:36:10.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.420][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:10.423][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:36:10.424][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:36:10.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:10.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:10.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:10.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:10.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:10.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:10.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:10.438][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-14 12:36:10.439][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-14 12:36:10.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:10.442][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-14 12:36:10.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-14 12:36:10.445][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 12:36:10.447][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-14 12:36:10.448][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 12:36:10.449][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-14 12:36:10.450][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-14 12:36:10.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:10.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:10.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:10.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:10.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:10.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:10.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 12:36:10.465][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.466][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.468][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.472][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.473][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.475][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.479][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.480][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.482][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.495][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.497][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.499][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.501][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.507][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.512][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.513][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.514][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.521][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.522][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.526][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.527][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.528][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.530][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.533][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.534][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.536][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.540][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.541][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.543][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.544][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.548][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.549][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.551][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.556][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.557][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.559][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.564][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.566][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.573][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.577][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.580][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.584][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.585][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.587][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.594][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.601][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.602][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.604][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.605][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.609][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:10.610][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.612][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-14 12:36:10.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.627][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.631][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.634][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 12:36:10.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.637][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.642][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.645][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-14 12:36:10.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 12:36:10.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-14 12:36:10.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.672][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-14 12:36:10.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.679][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.682][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.685][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-14 12:36:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.702][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.706][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-14 12:36:10.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.719][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 12:36:10.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 12:36:10.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 12:36:10.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 12:36:10.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.749][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 12:36:10.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 12:36:10.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.769][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.782][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.793][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-14 12:36:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.799][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.806][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-14 12:36:10.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.809][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 12:36:10.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 12:36:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.820][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:10.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.833][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-14 12:36:10.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 12:36:10.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 12:36:10.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 12:36:10.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.855][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.858][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.867][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-14 12:36:10.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 12:36:10.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 12:36:10.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:10.901][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-14 12:36:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.906][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.912][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:10.915][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:36:10.916][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:36:10.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:10.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:10.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:10.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:10.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:10.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:10.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:10.934][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-14 12:36:10.935][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-14 12:36:10.936][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-14 12:36:10.938][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:10.939][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:10.940][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:10.942][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:10.943][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:10.944][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:10.945][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:10.946][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:10.947][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:36:10.948][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:36:10.949][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:36:10.951][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.958][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.962][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.969][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:10.977][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:36:10.978][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:36:10.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:10.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:10.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:10.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:10.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:10.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:10.989][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.TRACE[2025-01-14 12:36:10.991][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:10.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:10.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:10.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:10.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.006][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:11.025][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-14 12:36:11.026][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:36:11.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:11.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:11.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:11.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:11.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:11.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:11.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 12:36:11.041][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-14 12:36:11.042][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-14 12:36:11.043][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-14 12:36:11.045][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:11.046][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:11.047][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-14 12:36:11.048][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-14 12:36:11.049][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-14 12:36:11.050][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-14 12:36:11.051][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-14 12:36:11.052][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-14 12:36:11.053][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-14 12:36:11.054][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-14 12:36:11.055][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-14 12:36:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.064][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.067][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:11.080][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-14 12:36:11.081][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-14 12:36:11.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:11.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:11.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:11.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:11.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:11.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:11.092][FUN] Functions in observer BiodbConfig: [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[2025-01-14 12:36:11.093][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.096][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.111][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.116][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 12:36:11.123][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-14 12:36:11.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-14 12:36:11.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 12:36:11.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 12:36:11.126][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-14 12:36:11.127][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-14 12:36:11.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 12:36:11.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:11.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:11.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:11.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:11.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:11.138][FUN] Functions in observer BiodbConfig: [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 [2025-01-14 12:36:11.146][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 12:36:11.147][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-14 12:36:11.148][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-14 12:36:11.149][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 12:36:11.150][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 12:36:11.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 12:36:11.151][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 12:36:11.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 12:36:11.153][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 12:36:11.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  8.958   0.517  34.750

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings