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"	4494
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"	4400
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: 2025-01-31 12:27:45 -0500 (Fri, 31 Jan 2025)

EndedAt: 2025-01-31 12:28:43 -0500 (Fri, 31 Jan 2025)

EllapsedTime: 57.9 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 [2025-01-31 12:28:21.628][biodb::testContext]
biodb.INFO [2025-01-31 12:28:21.632][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:21.634][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-31 12:28:21.635][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:21.636][biodb::testContext]
biodb.INFO [2025-01-31 12:28:21.637][biodb::testThat]
biodb.INFO [2025-01-31 12:28:21.638][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-31 12:28:21.639][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:21.640][biodb::testThat]
biodb.INFO [2025-01-31 12:28:21.776][biodb::testContext]
biodb.INFO [2025-01-31 12:28:21.778][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:21.778][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-31 12:28:21.779][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:21.780][biodb::testContext]
biodb.INFO [2025-01-31 12:28:21.792][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:21.794][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:21.804][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:21.806][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 12:28:21.807][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.810][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 12:28:21.838][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.842][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 12:28:21.843][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.846][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 12:28:21.847][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 12:28:21.848][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 12:28:21.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.851][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 12:28:21.852][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 12:28:21.853][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.856][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 12:28:21.857][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 12:28:21.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.859][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.DEBUG[2025-01-31 12:28:21.860][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 12:28:21.861][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 12:28:21.861][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 12:28:21.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.864][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 12:28:21.865][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.869][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 12:28:21.870][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 12:28:21.871][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 12:28:21.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.874][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:21.875][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 12:28:21.876][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 12:28:21.877][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 12:28:21.878][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 12:28:21.878][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 12:28:21.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.882][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 12:28:21.882][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 12:28:21.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.885][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 12:28:21.886][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 12:28:21.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.889][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 12:28:21.890][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 12:28:21.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.893][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 12:28:21.894][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 12:28:21.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.897][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 12:28:21.898][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 12:28:21.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.901][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:21.902][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 12:28:21.918][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 12:28:21.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.922][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 12:28:21.922][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 12:28:21.923][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 12:28:21.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:21.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:21.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:21.930][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 12:28:21.966][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:21.981][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 12:28:21.983][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:21.984][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:21.984][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:21.985][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:21.986][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:21.987][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:21.988][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:21.989][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:21.990][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:21.990][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 12:28:21.991][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:21.992][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:21.993][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:21.994][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:21.995][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:21.996][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:21.997][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:21.997][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.006][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.007][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.007][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.008][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.009][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.010][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.011][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 12:28:22.012][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.013][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:22.014][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.015][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:22.015][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.016][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.017][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.018][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.018][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:22.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:22.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.021][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 12:28:22.022][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:22.022][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.023][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.024][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:22.024][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:22.024][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:22.024][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:22.024][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:22.025][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:22.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.027][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:22.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.029][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.030][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.032][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.032][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.033][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.034][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 12:28:22.036][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.037][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 12:28:22.038][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.038][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:22.039][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.040][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.041][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.041][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.042][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:22.043][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:22.044][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.045][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 12:28:22.045][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:22.046][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.047][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.048][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.048][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:22.049][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.050][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.051][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:22.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.053][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.054][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.054][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.055][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.056][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.057][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.058][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 12:28:22.059][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.060][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:22.061][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.062][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:22.062][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.063][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.064][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.065][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.066][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:22.066][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:22.067][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.068][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 12:28:22.069][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:22.069][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.070][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.071][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.072][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:22.073][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.074][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:22.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.076][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.077][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.079][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.080][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.085][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:22.086][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.115][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[2025-01-31 12:28:22.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.119][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[2025-01-31 12:28:22.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.132][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[2025-01-31 12:28:22.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.139][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[2025-01-31 12:28:22.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.143][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[2025-01-31 12:28:22.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.153][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 12:28:22.159][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 12:28:22.160][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 12:28:22.162][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 12:28:22.163][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 12:28:22.164][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:22.165][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:22.166][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:22.168][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 12:28:22.169][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:22.170][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:22.171][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 12:28:22.172][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:22.173][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:22.175][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 12:28:22.176][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:22.177][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 12:28:22.178][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 12:28:22.179][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 12:28:22.180][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 12:28:22.182][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 12:28:22.183][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 12:28:22.184][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 12:28:22.185][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 12:28:22.186][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 12:28:22.187][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 12:28:22.189][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 12:28:22.190][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 12:28:22.191][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 12:28:22.192][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 12:28:22.193][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 12:28:22.194][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 12:28:22.195][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 12:28:22.196][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 12:28:22.198][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 12:28:22.199][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 12:28:22.200][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 12:28:22.201][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 12:28:22.202][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 12:28:22.203][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 12:28:22.204][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 12:28:22.205][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 12:28:22.207][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 12:28:22.208][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 12:28:22.209][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 12:28:22.210][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 12:28:22.211][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 12:28:22.212][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 12:28:22.213][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 12:28:22.214][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 12:28:22.215][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 12:28:22.217][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 12:28:22.218][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 12:28:22.219][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 12:28:22.220][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 12:28:22.221][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 12:28:22.222][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 12:28:22.223][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 12:28:22.224][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 12:28:22.226][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 12:28:22.227][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 12:28:22.228][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 12:28:22.229][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 12:28:22.230][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 12:28:22.231][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 12:28:22.232][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 12:28:22.233][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 12:28:22.234][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 12:28:22.235][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 12:28:22.237][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 12:28:22.238][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 12:28:22.239][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 12:28:22.240][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 12:28:22.241][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 12:28:22.242][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 12:28:22.243][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 12:28:22.244][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 12:28:22.245][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 12:28:22.247][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 12:28:22.248][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 12:28:22.249][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 12:28:22.250][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 12:28:22.251][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 12:28:22.257][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 12:28:22.259][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:22.263][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:22.264][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.265][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.357][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[2025-01-31 12:28:22.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.372][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[2025-01-31 12:28:22.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.382][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[2025-01-31 12:28:22.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:22.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:22.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.397][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[2025-01-31 12:28:22.400][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:22.410][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:22.412][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.413][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.414][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.414][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:22.415][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.416][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 12:28:22.417][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.418][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.419][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 12:28:22.419][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:22.420][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.421][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 12:28:22.422][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 12:28:22.423][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 12:28:22.424][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:22.425][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:22.425][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 12:28:22.425][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 12:28:22.425][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 12:28:22.426][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.427][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.428][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:22.429][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:22.429][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:22.430][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:22.431][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:22.431][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 12:28:22.432][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.432][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.433][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:22.434][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:22.440][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 12:28:22.441][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:22.443][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:22.444][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:22.445][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:22.475][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:22.477][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 12:28:22.482][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:22.487][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:22.493][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:22.494][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:22.495][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 12:28:22.496][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 12:28:22.497][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:22.497][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 12:28:22.498][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:22.498][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:22.499][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 12:28:22.500][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 12:28:22.501][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:22.527][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:22.528][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:22.529][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:22.530][private$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[2025-01-31 12:28:22.531][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:22.532][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 12:28:22.543][biodb::testThat]
biodb.INFO [2025-01-31 12:28:22.544][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-31 12:28:22.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:22.546][biodb::testThat]
biodb.TRACE[2025-01-31 12:28:22.552][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[2025-01-31 12:28:22.554][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:22.559][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:22.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:22.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:22.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:22.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:22.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:22.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:22.580][FUN] Functions in observer BiodbConfig: [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[2025-01-31 12:28:22.596][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:22.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:22.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.599][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:22.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:22.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.617][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.618][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.620][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.645][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.650][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.651][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.652][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.653][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.657][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.658][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.660][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.665][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.666][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.672][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.673][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.675][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.679][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.682][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.697][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.698][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.700][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.704][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.705][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.707][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.708][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.711][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.712][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.714][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.715][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.718][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:22.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:22.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.721][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:22.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:22.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.725][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:22.726][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:22.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.727][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:22.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:22.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.734][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.739][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.741][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:22.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:22.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.748][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:22.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.752][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:22.753][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:22.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.754][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.755][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:22.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:22.759][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:22.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.765][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:22.766][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.769][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:22.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:22.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:22.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:22.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:22.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:22.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:22.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.821][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:22.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.833][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.836][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.839][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:22.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:22.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:22.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.871][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:22.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.881][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:22.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.884][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:22.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.893][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:22.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:22.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:22.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.900][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:22.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:22.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:22.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:22.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:22.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:22.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.910][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:22.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:22.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:22.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:22.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:22.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:22.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:22.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.933][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.945][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:22.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:22.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.959][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:22.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:22.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:22.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:22.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:22.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:22.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.969][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.973][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:22.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.980][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.984][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.987][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.990][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:22.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:22.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:22.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:22.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:22.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:22.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:22.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:22.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.000][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:23.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.013][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:23.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.052][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.057][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.064][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:23.095][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 12:28:23.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:23.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:23.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:23.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:23.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:23.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:23.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.110][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:23.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:23.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.143][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.175][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.178][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.182][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.206][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.208][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.221][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.233][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.237][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.240][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.241][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.244][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.266][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.267][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.268][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.281][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.285][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.292][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.293][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.320][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.332][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.342][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.345][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.346][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.361][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.375][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.376][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.378][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.401][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.402][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.404][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.404][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.426][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.427][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.429][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.441][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.445][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.448][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.452][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.452][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.454][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.455][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.478][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.492][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.496][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.499][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.510][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.511][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.512][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.524][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.528][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.532][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.535][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.536][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.538][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.551][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.555][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.558][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.562][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.563][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.564][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.565][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.581][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.588][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.591][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.617][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.617][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.619][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.644][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.646][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.654][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.667][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.671][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.674][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.678][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.678][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.680][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.681][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.692][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.695][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.702][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.703][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.705][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.711][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.713][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.715][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.724][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.730][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.731][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.732][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.738][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.739][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:23.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.741][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.746][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.747][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:23.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.749][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.754][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.755][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:23.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.757][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.762][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:23.763][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:23.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.764][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.771][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:23.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:23.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.774][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.779][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:23.780][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:23.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.782][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.787][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:23.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.790][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.797][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:23.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.805][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.817][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:23.818][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:23.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.820][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.825][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.826][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.828][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.832][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.834][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.836][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:23.842][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:23.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.844][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:23.852][biodb::testThat]
biodb.INFO [2025-01-31 12:28:23.853][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-31 12:28:23.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:23.855][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:23.871][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 12:28:23.881][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:23.887][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:23.889][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:23.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 12:28:23.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 12:28:23.895][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 12:28:23.896][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:23.920][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:23.921][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:23.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:23.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:23.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:23.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:23.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:23.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:23.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 12:28:23.938][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.940][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:23.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:23.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.945][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.946][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.947][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.948][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:23.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.952][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.953][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.955][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.956][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:23.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.960][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.961][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.970][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.972][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:23.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.978][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:23.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.982][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.983][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.985][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:23.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.989][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.992][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:23.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:23.996][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.997][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:23.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:23.999][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.000][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.003][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.004][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.010][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.011][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.012][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.016][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:24.017][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:24.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:24.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:24.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.023][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:24.024][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:24.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.025][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:24.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:24.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.032][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.037][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.043][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.045][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.049][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.050][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:24.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:24.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.058][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.063][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:24.064][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.065][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.067][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:24.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.080][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:24.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.096][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.099][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.104][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:24.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:24.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:24.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.131][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.139][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:24.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.146][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.149][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:24.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.152][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.155][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:24.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.168][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:24.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:24.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:24.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:24.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:24.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:24.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:24.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:24.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.204][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.214][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:24.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.230][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.237][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.240][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.243][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:24.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.246][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.252][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:24.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:24.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:24.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:24.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.262][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:24.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:24.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.265][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:24.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.278][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:24.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:24.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.299][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.308][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:24.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:24.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:24.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.337][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 12:28:24.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-31 12:28:24.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-31 12:28:24.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-31 12:28:24.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-31 12:28:24.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-31 12:28:24.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-31 12:28:24.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:24.357][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.358][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-31 12:28:24.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.360][biodb::testThat]
biodb.TRACE[2025-01-31 12:28:24.363][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.364][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.366][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.368][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-31 12:28:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.410][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-31 12:28:24.411][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 12:28:24.412][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 12:28:24.413][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 12:28:24.414][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.416][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.417][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:24.418][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.419][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:24.420][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:24.421][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:24.422][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:24.423][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:24.424][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:24.425][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:24.427][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.440][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:24.441][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:24.442][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 12:28:24.454][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.456][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.458][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.459][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-31 12:28:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.484][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.493][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[2025-01-31 12:28:24.546][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 12:28:24.548][private$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[2025-01-31 12:28:24.549][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-31 12:28:24.564][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.566][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.567][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:24.568][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.569][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:24.591][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:24.592][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:24.593][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:24.594][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:24.595][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:24.596][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:24.598][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.601][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.605][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.608][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:24.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:24.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.612][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:24.612][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:24.613][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 12:28:24.626][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.627][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.629][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.630][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-31 12:28:24.643][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.647][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.650][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.657][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-31 12:28:24.658][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-31 12:28:24.659][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 12:28:24.660][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 12:28:24.661][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.663][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.664][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:24.665][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.666][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:24.667][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:24.668][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:24.669][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:24.670][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:24.671][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:24.671][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:24.673][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.676][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.680][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.683][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:24.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.686][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:24.687][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:24.688][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-31 12:28:24.703][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.704][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-31 12:28:24.705][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.706][biodb::testThat]
biodb.TRACE[2025-01-31 12:28:24.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.748][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 12:28:24.749][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 12:28:24.750][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 12:28:24.752][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.755][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:24.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:24.757][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:24.758][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:24.760][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:24.760][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:24.761][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:24.762][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:24.763][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:24.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:24.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:24.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:24.778][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:24.779][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-31 12:28:24.794][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.796][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-31 12:28:24.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.797][biodb::testThat]
biodb.TRACE[2025-01-31 12:28:24.819][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:24.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.830][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:24.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 12:28:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:24.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 12:28:24.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:24.894][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:24.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 12:28:24.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:24.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:24.905][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.906][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-31 12:28:24.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.908][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.916][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.917][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-31 12:28:24.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.919][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.927][biodb::testThat]
biodb.INFO [2025-01-31 12:28:24.928][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-31 12:28:24.929][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:24.929][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:24.933][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-31 12:28:31.586][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-31 12:28:31.779][biodb::testThat]
biodb.INFO [2025-01-31 12:28:31.780][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-31 12:28:31.781][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:31.782][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:33.664][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-31 12:28:33.849][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:33.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:33.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.853][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.853][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:33.854][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:33.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.857][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:33.858][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:33.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.859][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:33.861][biodb::testThat]
biodb.INFO [2025-01-31 12:28:33.862][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-31 12:28:33.862][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:33.863][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:33.865][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-31 12:28:33.922][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:33.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:33.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:33.941][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-31 12:28:33.943][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 12:28:33.944][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 12:28:33.945][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:33.946][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:33.947][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:33.948][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:33.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:33.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:33.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:33.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:33.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:33.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:33.959][FUN] Functions in observer BiodbConfig: [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[2025-01-31 12:28:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:33.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:33.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:33.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:33.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:33.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:33.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:33.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:33.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:33.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:34.026][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 12:28:34.027][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-31 12:28:34.045][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.046][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-31 12:28:34.047][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.048][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:34.058][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-31 12:28:34.059][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-31 12:28:34.060][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:34.062][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.063][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:34.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-31 12:28:34.066][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 12:28:34.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 12:28:34.068][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:34.070][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.071][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:34.072][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:34.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:34.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.083][FUN] Functions in observer BiodbConfig: [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[2025-01-31 12:28:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:34.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.090][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:34.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:34.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:34.113][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 12:28:34.114][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-31 12:28:34.115][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-31 12:28:34.137][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.139][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-31 12:28:34.140][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.141][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.165][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.166][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-31 12:28:34.167][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.168][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:34.170][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.172][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.173][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:34.175][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.176][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:34.177][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:34.178][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:34.179][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:34.180][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-31 12:28:34.189][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.190][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-31 12:28:34.191][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.192][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:34.194][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.196][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.197][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:34.199][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.199][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:34.201][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:34.202][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:34.203][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:34.204][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-31 12:28:34.214][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:34.216][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:34.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.217][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.219][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:34.220][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:34.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.222][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.222][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.223][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.225][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:34.226][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 12:28:34.227][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 12:28:34.236][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 12:28:34.237][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 12:28:34.238][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.240][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.241][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.242][FUN] Functions in observer BiodbConfig: [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 [2025-01-31 12:28:34.246][biodb::testContext]
biodb.INFO [2025-01-31 12:28:34.247][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:34.248][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-31 12:28:34.249][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:34.251][biodb::testContext]
biodb.INFO [2025-01-31 12:28:34.265][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:34.267][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:34.272][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:34.273][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 12:28:34.274][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.277][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 12:28:34.278][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.282][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 12:28:34.283][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.286][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 12:28:34.287][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 12:28:34.288][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 12:28:34.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.291][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 12:28:34.291][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 12:28:34.292][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.295][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 12:28:34.296][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 12:28:34.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.299][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 12:28:34.300][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 12:28:34.301][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 12:28:34.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.304][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 12:28:34.305][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.307][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 12:28:34.308][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 12:28:34.309][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 12:28:34.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.312][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:34.313][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 12:28:34.313][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 12:28:34.314][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 12:28:34.315][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 12:28:34.316][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 12:28:34.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.319][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 12:28:34.320][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 12:28:34.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.322][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 12:28:34.323][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 12:28:34.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.326][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 12:28:34.327][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 12:28:34.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.330][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 12:28:34.331][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 12:28:34.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.334][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 12:28:34.335][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 12:28:34.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.338][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:34.338][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 12:28:34.354][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 12:28:34.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.359][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 12:28:34.360][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 12:28:34.361][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 12:28:34.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.364][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 12:28:34.366][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.367][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 12:28:34.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.368][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:34.369][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.370][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.371][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.378][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.379][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:34.381][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:34.382][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.383][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 12:28:34.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:34.384][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.385][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.386][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:34.386][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:34.386][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:34.386][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:34.386][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:34.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:34.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.389][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:34.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.391][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.392][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.393][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.394][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.395][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.395][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.396][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 12:28:34.398][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.399][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:34.400][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.401][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:34.402][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.403][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.405][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.406][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:34.406][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:34.407][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.408][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 12:28:34.409][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:34.410][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.411][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:34.412][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:34.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:34.416][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.416][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.417][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.418][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.419][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.419][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.420][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.421][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.422][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 12:28:34.423][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.424][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 12:28:34.425][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.426][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:34.427][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.428][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.428][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.429][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.430][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:34.431][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:34.432][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.432][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 12:28:34.433][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:34.434][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.435][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.436][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.436][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:34.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.439][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:34.439][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.440][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.441][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.442][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.444][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.445][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.446][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 12:28:34.447][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.448][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:34.449][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.450][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:34.451][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.451][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.452][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.453][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.454][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:34.455][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:34.455][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.456][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 12:28:34.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:34.458][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.459][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.459][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.460][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:34.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:34.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.465][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.466][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.474][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.476][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.477][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.478][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:34.479][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.480][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[2025-01-31 12:28:34.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.487][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[2025-01-31 12:28:34.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.491][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[2025-01-31 12:28:34.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.495][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[2025-01-31 12:28:34.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.540][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[2025-01-31 12:28:34.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.545][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 12:28:34.546][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 12:28:34.548][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 12:28:34.549][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 12:28:34.550][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 12:28:34.551][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:34.553][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:34.554][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:34.555][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 12:28:34.556][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:34.557][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:34.559][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 12:28:34.560][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:34.561][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:34.568][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 12:28:34.570][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:34.572][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 12:28:34.573][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 12:28:34.574][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 12:28:34.575][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 12:28:34.577][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 12:28:34.579][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 12:28:34.580][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 12:28:34.581][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 12:28:34.582][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 12:28:34.584][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 12:28:34.585][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 12:28:34.587][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 12:28:34.588][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 12:28:34.589][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 12:28:34.590][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 12:28:34.592][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 12:28:34.593][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 12:28:34.594][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 12:28:34.595][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 12:28:34.596][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 12:28:34.597][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 12:28:34.599][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 12:28:34.600][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 12:28:34.601][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 12:28:34.602][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 12:28:34.603][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 12:28:34.605][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 12:28:34.606][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 12:28:34.607][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 12:28:34.608][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 12:28:34.610][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 12:28:34.611][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 12:28:34.613][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 12:28:34.614][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 12:28:34.615][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 12:28:34.617][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 12:28:34.618][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 12:28:34.619][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 12:28:34.621][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 12:28:34.622][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 12:28:34.624][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 12:28:34.625][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 12:28:34.627][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 12:28:34.629][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 12:28:34.630][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 12:28:34.631][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 12:28:34.633][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 12:28:34.634][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 12:28:34.635][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 12:28:34.636][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 12:28:34.638][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 12:28:34.639][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 12:28:34.640][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 12:28:34.641][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 12:28:34.642][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 12:28:34.644][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 12:28:34.645][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 12:28:34.646][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 12:28:34.647][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 12:28:34.649][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 12:28:34.650][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 12:28:34.651][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 12:28:34.652][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 12:28:34.654][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 12:28:34.655][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 12:28:34.656][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 12:28:34.657][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 12:28:34.658][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 12:28:34.660][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:34.661][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:34.662][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.671][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.672][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[2025-01-31 12:28:34.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.678][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[2025-01-31 12:28:34.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.748][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[2025-01-31 12:28:34.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.753][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[2025-01-31 12:28:34.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.758][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[2025-01-31 12:28:34.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:34.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:34.774][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:34.775][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:34.777][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.778][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.779][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.780][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:34.781][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.781][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 12:28:34.782][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.785][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 12:28:34.785][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:34.786][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.787][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 12:28:34.788][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 12:28:34.790][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 12:28:34.791][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:34.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:34.792][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 12:28:34.792][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 12:28:34.793][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 12:28:34.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.795][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.796][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:34.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:34.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:34.798][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:34.799][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:34.799][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 12:28:34.800][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.801][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.801][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:34.802][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:34.803][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 12:28:34.805][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:34.806][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:34.808][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:34.810][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:34.813][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:34.814][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 12:28:34.816][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:34.817][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:34.819][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:34.819][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:34.821][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 12:28:34.822][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 12:28:34.823][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:34.823][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 12:28:34.823][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:34.824][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:34.825][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 12:28:34.826][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 12:28:34.827][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:34.828][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:34.830][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:34.831][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:34.832][private$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[2025-01-31 12:28:34.834][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:34.835][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 12:28:34.836][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.837][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-31 12:28:34.838][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.839][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:34.843][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.845][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.846][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:34.847][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.848][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:34.849][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:34.851][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:34.851][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:34.852][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:34.856][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-31 12:28:34.862][biodb::testThat]
biodb.INFO [2025-01-31 12:28:34.863][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-31 12:28:34.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:34.865][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:34.867][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 12:28:34.868][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:34.870][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:34.871][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:34.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 12:28:34.874][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 12:28:34.877][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 12:28:34.885][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:34.887][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:34.889][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:34.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:34.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:34.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:34.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:34.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:34.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:34.901][FUN] Functions in observer BiodbConfig: [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[2025-01-31 12:28:34.904][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.906][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.907][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:34.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:34.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.912][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.913][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.915][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.916][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.920][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:34.920][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:34.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.922][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.927][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:34.928][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:34.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.929][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.930][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:34.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:34.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.937][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:34.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:34.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.941][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:34.942][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:34.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.944][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:34.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:34.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:34.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.952][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:34.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:34.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.956][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:34.957][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:34.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.959][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.963][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:34.964][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:34.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:34.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.970][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:34.971][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:34.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.973][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:34.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:34.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.977][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:34.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:34.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.980][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:34.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:34.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.993][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:34.995][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:34.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:34.997][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:35.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:35.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.003][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.012][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.017][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.018][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.020][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.024][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:35.025][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:35.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.028][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:35.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.031][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:35.032][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:35.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.034][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:35.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.038][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:35.039][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.041][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.042][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:35.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.057][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.060][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.063][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:35.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.067][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.070][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:35.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:35.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.111][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:35.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:35.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:35.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:35.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:35.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:35.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:35.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:35.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:35.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.191][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:35.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.214][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.220][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:35.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.224][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.230][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:35.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:35.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:35.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.240][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:35.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:35.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.243][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:35.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.257][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:35.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:35.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:35.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.288][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.298][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:35.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:35.322][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 12:28:35.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 12:28:35.341][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 12:28:35.343][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 12:28:35.344][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 12:28:35.344][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 12:28:35.345][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.347][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.348][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 12:28:35.353][biodb::testContext]
biodb.INFO [2025-01-31 12:28:35.355][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:35.355][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-31 12:28:35.356][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 12:28:35.357][biodb::testContext]
biodb.INFO [2025-01-31 12:28:35.362][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:35.364][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:35.369][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:35.370][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 12:28:35.371][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.374][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 12:28:35.375][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.378][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 12:28:35.379][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.382][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[2025-01-31 12:28:35.382][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 12:28:35.383][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 12:28:35.384][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 12:28:35.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.394][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 12:28:35.395][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 12:28:35.396][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.399][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 12:28:35.400][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 12:28:35.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.403][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 12:28:35.404][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 12:28:35.405][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 12:28:35.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.407][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[2025-01-31 12:28:35.408][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 12:28:35.409][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.411][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 12:28:35.412][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 12:28:35.413][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 12:28:35.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.415][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[2025-01-31 12:28:35.416][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:35.417][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 12:28:35.418][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 12:28:35.418][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 12:28:35.419][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 12:28:35.420][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 12:28:35.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.423][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 12:28:35.424][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 12:28:35.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.427][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 12:28:35.427][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 12:28:35.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.430][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 12:28:35.431][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 12:28:35.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.434][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 12:28:35.435][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 12:28:35.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.438][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 12:28:35.438][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 12:28:35.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.440][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[2025-01-31 12:28:35.441][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 12:28:35.442][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 12:28:35.457][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 12:28:35.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.461][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 12:28:35.462][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 12:28:35.463][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 12:28:35.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.467][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 12:28:35.469][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.470][self$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[2025-01-31 12:28:35.471][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.472][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:35.472][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.473][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.474][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.475][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.476][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:35.477][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:35.478][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.478][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 12:28:35.479][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:35.480][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.481][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.482][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:35.482][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:35.482][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:35.482][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:35.482][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:35.483][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:35.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:35.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.487][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.488][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.489][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.490][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.491][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.492][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.493][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.501][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 12:28:35.503][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.504][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:35.505][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:35.507][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.508][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.508][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.509][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.510][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:35.511][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:35.512][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.513][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 12:28:35.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:35.514][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.516][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:35.516][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 12:28:35.516][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 12:28:35.516][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 12:28:35.516][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 12:28:35.517][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:35.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.518][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.519][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:35.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.521][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.523][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.524][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.525][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.526][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.527][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 12:28:35.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.530][self$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[2025-01-31 12:28:35.531][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.532][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:35.533][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.534][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.535][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.536][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.536][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 12:28:35.537][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:35.538][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.539][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 12:28:35.540][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:35.541][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.541][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.542][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.543][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:35.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.545][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:35.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.549][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.549][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.550][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.551][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.552][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.553][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 12:28:35.554][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.555][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 12:28:35.556][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.557][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:35.558][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.559][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.560][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.561][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 12:28:35.562][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:35.563][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.564][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 12:28:35.565][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:35.566][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.566][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.567][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.568][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 12:28:35.569][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.571][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:35.571][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.572][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.573][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.574][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.574][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.575][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.576][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.577][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.578][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:35.579][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.621][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[2025-01-31 12:28:35.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.624][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[2025-01-31 12:28:35.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.631][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[2025-01-31 12:28:35.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.650][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[2025-01-31 12:28:35.651][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 12:28:35.652][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 12:28:35.654][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 12:28:35.655][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 12:28:35.656][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 12:28:35.658][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:35.659][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:35.660][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:35.662][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 12:28:35.663][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:35.665][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:35.666][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 12:28:35.667][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 12:28:35.668][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 12:28:35.670][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 12:28:35.671][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:35.672][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 12:28:35.673][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 12:28:35.674][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 12:28:35.675][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 12:28:35.677][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 12:28:35.678][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 12:28:35.679][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 12:28:35.687][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 12:28:35.689][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 12:28:35.690][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 12:28:35.691][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 12:28:35.693][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 12:28:35.694][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 12:28:35.695][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 12:28:35.696][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 12:28:35.698][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 12:28:35.699][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 12:28:35.700][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 12:28:35.701][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 12:28:35.702][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 12:28:35.703][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 12:28:35.705][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 12:28:35.706][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 12:28:35.707][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 12:28:35.708][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 12:28:35.710][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 12:28:35.711][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 12:28:35.712][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 12:28:35.714][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 12:28:35.715][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 12:28:35.716][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 12:28:35.717][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 12:28:35.719][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 12:28:35.720][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 12:28:35.721][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 12:28:35.722][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 12:28:35.724][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 12:28:35.725][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 12:28:35.726][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 12:28:35.727][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 12:28:35.728][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 12:28:35.730][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 12:28:35.731][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 12:28:35.732][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 12:28:35.733][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 12:28:35.734][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 12:28:35.735][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 12:28:35.737][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 12:28:35.738][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 12:28:35.739][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 12:28:35.740][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 12:28:35.741][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 12:28:35.742][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 12:28:35.744][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 12:28:35.745][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 12:28:35.746][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 12:28:35.747][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 12:28:35.748][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 12:28:35.749][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 12:28:35.751][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 12:28:35.752][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 12:28:35.753][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 12:28:35.754][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 12:28:35.755][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 12:28:35.756][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 12:28:35.758][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 12:28:35.759][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 12:28:35.760][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 12:28:35.762][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 12:28:35.763][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 12:28:35.764][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.765][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 12:28:35.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:35.873][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 12:28:35.875][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:35.877][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.878][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.879][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 12:28:35.881][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.882][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 12:28:35.882][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.883][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.884][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 12:28:35.885][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 12:28:35.886][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.887][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 12:28:35.888][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 12:28:35.890][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 12:28:35.891][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 12:28:35.891][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 12:28:35.891][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 12:28:35.891][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 12:28:35.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 12:28:35.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 12:28:35.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 12:28:35.896][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 12:28:35.897][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:35.897][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 12:28:35.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.900][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 12:28:35.901][self$setPropertyValue]
biodb.DEBUG[2025-01-31 12:28:35.902][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 12:28:35.903][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 12:28:35.905][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 12:28:35.906][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 12:28:35.907][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 12:28:35.911][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:35.912][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 12:28:35.913][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:35.915][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:35.916][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:35.917][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:35.918][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 12:28:35.919][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 12:28:35.920][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 12:28:35.920][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 12:28:35.921][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 12:28:35.922][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 12:28:35.922][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 12:28:35.923][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 12:28:35.924][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 12:28:35.925][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:35.927][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:35.927][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:35.929][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 12:28:35.930][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 12:28:35.931][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 12:28:35.932][biodb::testThat]
biodb.INFO [2025-01-31 12:28:35.933][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-31 12:28:35.934][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 12:28:35.935][biodb::testThat]
biodb.DEBUG[2025-01-31 12:28:35.937][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 12:28:35.938][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 12:28:35.939][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 12:28:35.942][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:35.943][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:35.945][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:35.946][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:35.947][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:35.948][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:35.949][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:35.950][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:35.951][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:35.952][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:35.953][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-31 12:28:35.955][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 12:28:35.956][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:35.957][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:35.958][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:35.960][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 12:28:35.961][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 12:28:35.963][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 12:28:35.964][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:35.966][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:35.967][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:35.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:35.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:35.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:35.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:35.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:35.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:35.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 12:28:35.990][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.991][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.993][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:35.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:35.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:35.997][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.998][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:35.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.000][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.005][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.005][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.007][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.008][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.012][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.012][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.014][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.026][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.026][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.028][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.039][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.040][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.042][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.046][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.047][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.053][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.054][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.056][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.061][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.062][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.063][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.074][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.076][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.078][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.083][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.084][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.085][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.090][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.099][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.103][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.104][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.106][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.110][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.111][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.113][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.117][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:36.118][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.121][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:36.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.134][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.141][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.147][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.151][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.192][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.195][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.199][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.209][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.212][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.221][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.260][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.308][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.311][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.314][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.318][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.385][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.408][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 12:28:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.415][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.418][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.422][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:36.422][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:36.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:36.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:36.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:36.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:36.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:36.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:36.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:36.434][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 12:28:36.435][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 12:28:36.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:36.438][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 12:28:36.440][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 12:28:36.441][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 12:28:36.442][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 12:28:36.444][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 12:28:36.445][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 12:28:36.446][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 12:28:36.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:36.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:36.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:36.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:36.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:36.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:36.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 12:28:36.459][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.462][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.475][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.476][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.484][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.484][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.486][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.490][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.491][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.493][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.501][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.506][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.507][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.509][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.514][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.515][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.517][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.520][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.521][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.522][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.524][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.527][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.528][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.529][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.530][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.534][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.535][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.536][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.541][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.544][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.545][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.551][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.555][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.558][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.562][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.563][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.572][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.579][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.580][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.582][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.586][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.587][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.588][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.593][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.595][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.600][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:36.601][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.603][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.604][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 12:28:36.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.617][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.624][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 12:28:36.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.627][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.630][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 12:28:36.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 12:28:36.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 12:28:36.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.660][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.672][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 12:28:36.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 12:28:36.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.687][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.694][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 12:28:36.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.697][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 12:28:36.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 12:28:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 12:28:36.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 12:28:36.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.736][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.739][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 12:28:36.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 12:28:36.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.782][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 12:28:36.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.785][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.788][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.792][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 12:28:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.798][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.801][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 12:28:36.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 12:28:36.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.805][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:36.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.818][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 12:28:36.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 12:28:36.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 12:28:36.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 12:28:36.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.842][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.848][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 12:28:36.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 12:28:36.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 12:28:36.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.882][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 12:28:36.882][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.889][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.896][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:36.896][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:36.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:36.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:36.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:36.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:36.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:36.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:36.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:36.913][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 12:28:36.914][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 12:28:36.915][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 12:28:36.916][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:36.918][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:36.919][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:36.920][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:36.921][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:36.922][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:36.923][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:36.924][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:36.925][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:36.926][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:36.926][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:36.928][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.935][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.938][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.945][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.952][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:36.959][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:36.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:36.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:36.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:36.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:36.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:36.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:36.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 12:28:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.977][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.980][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.987][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:36.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:36.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:36.997][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 12:28:36.998][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:36.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:36.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:37.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:37.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:37.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:37.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:37.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 12:28:37.015][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 12:28:37.016][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 12:28:37.017][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 12:28:37.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:37.020][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:37.021][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 12:28:37.022][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 12:28:37.023][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 12:28:37.024][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 12:28:37.025][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 12:28:37.026][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 12:28:37.027][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 12:28:37.028][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 12:28:37.029][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 12:28:37.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.037][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:37.058][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 12:28:37.058][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-31 12:28:37.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:37.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:37.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:37.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:37.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:37.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:37.079][FUN] Functions in observer BiodbConfig: [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[2025-01-31 12:28:37.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.084][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.091][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.098][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 12:28:37.101][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 12:28:37.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 12:28:37.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 12:28:37.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 12:28:37.105][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 12:28:37.106][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 12:28:37.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 12:28:37.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:37.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:37.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:37.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:37.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:37.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 12:28:37.124][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 12:28:37.125][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 12:28:37.126][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 12:28:37.127][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 12:28:37.128][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 12:28:37.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 12:28:37.129][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 12:28:37.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 12:28:37.131][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 12:28:37.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  8.745   0.503  17.932

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings