Multiple platform build/check report for BioC 3.21 - CHECK results for biodbHmdb on lconway

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4742
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4545
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4459
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 lconway

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: 1.13.0

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_1.13.0.tar.gz

StartedAt: 2025-03-18 19:27:38 -0400 (Tue, 18 Mar 2025)

EndedAt: 2025-03-18 19:28:47 -0400 (Tue, 18 Mar 2025)

EllapsedTime: 69.1 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_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2025-03-02 r87868)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.13.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.21-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/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.13.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-03-18 19:28:22.776][biodb::testContext]
biodb.INFO [2025-03-18 19:28:22.781][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:22.782][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-03-18 19:28:22.784][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:22.785][biodb::testContext]
biodb.INFO [2025-03-18 19:28:22.787][biodb::testThat]
biodb.INFO [2025-03-18 19:28:22.788][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-03-18 19:28:22.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:22.791][biodb::testThat]
biodb.INFO [2025-03-18 19:28:22.931][biodb::testContext]
biodb.INFO [2025-03-18 19:28:22.933][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:22.934][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-18 19:28:22.935][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:22.936][biodb::testContext]
biodb.INFO [2025-03-18 19:28:22.946][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:22.948][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:22.957][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:22.958][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 19:28:22.960][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 19:28:22.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:22.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:22.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:22.965][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 19:28:22.996][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 19:28:22.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:22.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.001][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 19:28:23.003][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 19:28:23.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.006][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 19:28:23.008][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 19:28:23.009][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 19:28:23.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.013][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 19:28:23.015][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 19:28:23.016][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 19:28:23.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.021][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 19:28:23.022][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 19:28:23.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.027][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 19:28:23.028][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 19:28:23.029][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 19:28:23.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.034][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 19:28:23.035][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 19:28:23.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.040][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 19:28:23.041][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 19:28:23.043][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 19:28:23.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.047][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:23.048][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 19:28:23.049][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 19:28:23.050][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 19:28:23.051][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 19:28:23.052][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 19:28:23.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.056][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 19:28:23.057][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 19:28:23.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.062][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 19:28:23.063][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 19:28:23.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.067][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 19:28:23.068][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 19:28:23.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.073][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 19:28:23.074][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 19:28:23.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.079][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 19:28:23.080][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 19:28:23.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.085][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:23.086][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 19:28:23.111][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 19:28:23.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.115][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[2025-03-18 19:28:23.116][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 19:28:23.118][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 19:28:23.119][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 19:28:23.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.127][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 19:28:23.166][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.184][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 19:28:23.186][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.187][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:23.188][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.189][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.190][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.191][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.192][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:23.193][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:23.194][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.195][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 19:28:23.196][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:23.197][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.198][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.199][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:23.199][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:23.199][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:23.199][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:23.199][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:23.200][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:23.201][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.202][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:23.204][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.205][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.206][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.207][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.215][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.217][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.218][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.219][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.221][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 19:28:23.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.224][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:23.225][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:23.227][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.229][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.230][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.231][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.232][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:23.234][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:23.235][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.236][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 19:28:23.237][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:23.238][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.239][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.240][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:23.240][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:23.240][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:23.240][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:23.240][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:23.242][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:23.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:23.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.248][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.249][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.250][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.252][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.253][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.254][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.256][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 19:28:23.258][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.259][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 19:28:23.260][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.261][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:23.263][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.264][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.265][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.266][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.267][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:23.268][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:23.269][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.270][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 19:28:23.272][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:23.273][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.274][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.275][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.276][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:23.277][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.280][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:23.281][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.282][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.283][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.285][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.286][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.287][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.288][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.290][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.291][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 19:28:23.292][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.294][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:23.295][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.296][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:23.297][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.299][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.301][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.302][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:23.303][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:23.304][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.305][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 19:28:23.307][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:23.308][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.309][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.310][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.311][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:23.312][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.314][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.315][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:23.316][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.318][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.319][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.320][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.321][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.323][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.324][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.329][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:23.330][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.399][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[2025-03-18 19:28:23.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.425][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 19:28:23.436][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 19:28:23.439][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 19:28:23.441][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 19:28:23.443][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 19:28:23.444][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:23.446][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:23.448][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:23.450][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 19:28:23.452][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:23.454][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:23.456][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 19:28:23.457][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:23.459][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:23.461][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 19:28:23.462][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:23.464][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 19:28:23.465][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 19:28:23.466][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 19:28:23.468][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 19:28:23.470][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 19:28:23.472][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 19:28:23.473][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 19:28:23.475][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 19:28:23.477][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 19:28:23.478][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 19:28:23.480][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 19:28:23.482][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 19:28:23.484][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 19:28:23.485][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 19:28:23.486][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 19:28:23.488][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 19:28:23.489][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 19:28:23.491][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 19:28:23.493][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 19:28:23.495][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 19:28:23.497][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 19:28:23.498][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 19:28:23.500][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 19:28:23.502][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 19:28:23.503][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 19:28:23.505][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 19:28:23.507][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 19:28:23.508][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 19:28:23.510][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 19:28:23.512][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 19:28:23.513][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 19:28:23.515][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 19:28:23.517][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 19:28:23.519][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 19:28:23.521][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 19:28:23.522][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 19:28:23.524][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 19:28:23.525][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 19:28:23.528][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 19:28:23.529][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 19:28:23.531][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 19:28:23.533][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 19:28:23.535][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 19:28:23.537][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 19:28:23.538][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 19:28:23.540][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 19:28:23.541][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 19:28:23.543][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 19:28:23.544][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 19:28:23.546][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 19:28:23.548][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 19:28:23.549][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 19:28:23.551][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 19:28:23.552][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 19:28:23.554][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 19:28:23.555][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 19:28:23.557][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 19:28:23.559][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 19:28:23.561][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 19:28:23.563][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 19:28:23.565][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 19:28:23.567][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 19:28:23.568][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 19:28:23.570][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 19:28:23.572][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 19:28:23.574][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 19:28:23.576][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 19:28:23.584][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 19:28:23.586][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:23.591][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:23.592][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.594][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.628][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[2025-03-18 19:28:23.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.700][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[2025-03-18 19:28:23.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.748][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[2025-03-18 19:28:23.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:23.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:23.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:23.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:23.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:23.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:23.782][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:23.797][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:23.800][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.802][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.803][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.805][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:23.806][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.808][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-18 19:28:23.809][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.810][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.811][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 19:28:23.813][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:23.814][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.815][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-18 19:28:23.817][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-18 19:28:23.818][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-18 19:28:23.820][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:23.821][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:23.821][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-18 19:28:23.821][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-18 19:28:23.823][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 19:28:23.824][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.825][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.826][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:23.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:23.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:23.830][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:23.832][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:23.832][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-18 19:28:23.833][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.834][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.835][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:23.836][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:23.844][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-18 19:28:23.846][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:23.849][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:23.851][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:23.853][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:23.885][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:23.887][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-18 19:28:23.892][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:23.897][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:23.902][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:23.904][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:23.905][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-18 19:28:23.907][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-18 19:28:23.908][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:23.908][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-18 19:28:23.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:23.911][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:23.912][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-18 19:28:23.913][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-18 19:28:23.915][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:23.949][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:23.952][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:23.953][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:23.955][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:23.957][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:23.958][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-18 19:28:23.967][biodb::testThat]
biodb.INFO [2025-03-18 19:28:23.969][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-18 19:28:23.970][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:23.972][biodb::testThat]
biodb.TRACE[2025-03-18 19:28:23.977][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-03-18 19:28:23.980][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:23.984][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:23.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:23.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:23.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:24.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:24.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:24.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:24.005][FUN] Functions in observer BiodbConfig: [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[2025-03-18 19:28:24.017][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.032][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.036][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.059][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.060][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.063][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.100][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.107][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.108][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.111][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.113][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.118][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.120][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.122][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.123][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.134][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.141][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.142][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.154][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.156][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.157][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.174][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.175][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.178][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.185][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.187][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.191][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.196][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.197][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.200][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.206][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:24.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:24.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.210][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:24.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:24.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.216][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:24.218][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:24.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:24.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.230][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.241][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.248][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.252][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.259][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:24.260][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:24.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:24.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:24.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:24.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:24.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.274][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.276][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:24.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:24.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.281][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:24.283][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.285][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.287][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:24.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.363][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.369][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:24.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.379][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.384][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.389][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:24.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:24.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:24.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:24.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.460][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.465][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:24.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:24.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:24.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.474][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:24.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:24.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.478][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:24.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:24.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.483][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:24.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:24.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:24.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:24.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:24.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:24.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:24.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:24.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:24.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:24.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:24.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.523][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.533][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:24.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:24.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.573][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.577][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.582][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.587][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.591][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.597][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:24.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:24.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.606][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:24.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:24.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.611][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:24.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:24.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.616][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:24.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.635][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:24.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:24.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:24.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.691][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.696][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.706][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:24.749][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-18 19:28:24.752][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:24.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:24.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.758][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:24.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:24.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:24.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:24.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.769][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:24.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:24.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.808][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.854][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.859][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.863][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:24.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.891][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.892][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.895][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:24.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:24.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.914][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.925][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.929][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.931][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.933][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.934][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:24.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.966][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.968][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.970][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:24.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.990][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:24.995][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:24.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.000][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.005][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.006][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.008][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.010][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.041][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.058][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.067][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.072][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.073][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.076][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.121][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.125][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.151][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.155][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.156][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.158][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.188][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.193][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.197][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.214][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.220][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.225][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.231][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.232][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.235][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.268][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.270][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.290][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.307][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.317][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.320][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.340][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.345][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.356][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.357][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.360][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.361][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.376][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.383][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.389][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.394][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.395][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.398][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.399][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.427][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.432][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.433][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.471][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.472][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.510][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.546][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.550][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.555][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.556][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.558][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.577][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:25.579][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:25.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.581][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.588][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.590][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.593][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.600][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.601][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.604][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.616][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.623][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.625][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.629][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.637][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.638][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.641][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.648][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.650][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:25.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.653][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.660][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.661][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:25.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.663][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.671][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:25.672][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:25.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:25.683][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:25.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.685][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:25.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:25.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.697][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.706][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:25.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.708][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.720][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.726][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:25.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.730][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.744][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:25.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:25.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.755][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.757][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.759][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.766][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.768][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.771][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:25.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:25.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.782][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:25.794][biodb::testThat]
biodb.INFO [2025-03-18 19:28:25.795][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-18 19:28:25.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:25.798][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:25.818][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-18 19:28:25.826][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:25.831][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:25.833][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:25.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-18 19:28:25.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 19:28:25.840][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-18 19:28:25.842][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:25.877][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:25.879][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:25.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:25.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:25.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:25.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:25.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:25.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:25.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:25.902][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:25.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:25.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.906][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:25.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:25.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.914][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.915][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.918][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.920][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.925][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.927][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.929][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.931][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:25.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.936][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.937][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.939][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.948][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.956][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:25.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.964][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.966][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:25.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.978][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.984][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.986][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.988][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.989][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:25.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:25.994][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.995][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:25.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:25.998][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.005][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.007][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.017][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:26.018][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:26.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.021][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:26.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:26.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:26.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:26.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:26.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:26.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.039][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.040][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.049][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.050][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.052][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.059][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.061][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.063][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.070][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.072][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.075][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:26.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:26.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.084][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:26.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:26.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.091][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:26.093][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.097][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:26.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.117][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.136][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:26.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.147][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:26.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:26.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.185][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.204][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.223][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:26.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.227][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.231][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:26.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:26.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.244][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:26.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:26.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:26.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:26.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:26.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:26.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:26.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:26.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.278][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:26.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.336][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:26.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.346][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.352][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:26.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:26.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:26.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:26.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.373][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:26.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:26.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:26.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.422][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.426][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.436][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:26.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:26.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:26.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.477][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-18 19:28:26.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-18 19:28:26.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-18 19:28:26.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-18 19:28:26.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-18 19:28:26.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-18 19:28:26.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-18 19:28:26.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:26.504][biodb::testThat]
biodb.INFO [2025-03-18 19:28:26.505][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-18 19:28:26.507][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:26.508][biodb::testThat]
biodb.TRACE[2025-03-18 19:28:26.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.514][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.516][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.518][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-03-18 19:28:26.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.572][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-03-18 19:28:26.574][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-18 19:28:26.575][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-18 19:28:26.577][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-18 19:28:26.579][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.580][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.581][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:26.583][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.584][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:26.586][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:26.587][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:26.589][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:26.590][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:26.591][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:26.592][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:26.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.615][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:26.617][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:26.618][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-18 19:28:26.636][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.638][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.640][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.642][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-03-18 19:28:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.671][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.676][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.684][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[2025-03-18 19:28:26.750][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-18 19:28:26.751][private$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[2025-03-18 19:28:26.753][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-18 19:28:26.773][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.776][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.778][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:26.780][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.781][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:26.807][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:26.809][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:26.810][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:26.811][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:26.813][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:26.814][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.827][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:26.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:26.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.837][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:26.838][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:26.839][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-18 19:28:26.856][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.858][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.861][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.862][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-03-18 19:28:26.881][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.887][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.892][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.900][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-03-18 19:28:26.902][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-03-18 19:28:26.903][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-18 19:28:26.905][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-18 19:28:26.907][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.911][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:26.913][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:26.914][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:26.916][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:26.918][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:26.919][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:26.920][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:26.922][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:26.923][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.929][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.938][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:26.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:26.943][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:26.944][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:26.946][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-03-18 19:28:26.968][biodb::testThat]
biodb.INFO [2025-03-18 19:28:26.969][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-18 19:28:26.970][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:26.972][biodb::testThat]
biodb.TRACE[2025-03-18 19:28:26.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:26.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:26.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:27.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:27.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:27.029][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-18 19:28:27.030][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-18 19:28:27.032][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-18 19:28:27.034][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:27.035][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:27.037][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:27.039][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:27.041][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:27.042][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:27.044][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:27.045][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:27.046][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:27.047][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:27.049][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:27.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:27.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:27.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:27.072][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:27.074][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-03-18 19:28:27.095][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.097][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-18 19:28:27.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:27.099][biodb::testThat]
biodb.TRACE[2025-03-18 19:28:27.126][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:27.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 19:28:27.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 19:28:27.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:27.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:27.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 19:28:27.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:27.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:27.243][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.244][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-18 19:28:27.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:27.247][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.258][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.260][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-18 19:28:27.261][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:27.262][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.273][biodb::testThat]
biodb.INFO [2025-03-18 19:28:27.274][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-18 19:28:27.275][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:27.277][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:27.282][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-03-18 19:28:35.830][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-03-18 19:28:35.880][biodb::testThat]
biodb.INFO [2025-03-18 19:28:35.882][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-18 19:28:35.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:35.885][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:36.183][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-03-18 19:28:36.234][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:36.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:36.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.240][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:36.242][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:36.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.244][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.246][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:36.247][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:36.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.250][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:36.253][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.254][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-18 19:28:36.256][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:36.257][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:36.259][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-18 19:28:36.338][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:36.341][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.343][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:36.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-18 19:28:36.370][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-18 19:28:36.372][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-18 19:28:36.374][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:36.376][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.378][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:36.380][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:36.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:36.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:36.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:36.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:36.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:36.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:36.399][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:36.477][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-18 19:28:36.478][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-18 19:28:36.501][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.503][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-18 19:28:36.504][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:36.505][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:36.516][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-03-18 19:28:36.518][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-03-18 19:28:36.520][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:36.523][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.524][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:36.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-03-18 19:28:36.529][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-18 19:28:36.531][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-18 19:28:36.532][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:36.534][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.536][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:36.537][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:36.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:36.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:36.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:36.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:36.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:36.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:36.557][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.562][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:36.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:36.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:36.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:36.602][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-18 19:28:36.603][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-18 19:28:36.604][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-03-18 19:28:36.633][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.635][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-18 19:28:36.636][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:36.638][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.671][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.672][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-18 19:28:36.673][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:36.675][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:36.678][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.680][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.682][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:36.684][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.686][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:36.687][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:36.689][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:36.690][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:36.692][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-03-18 19:28:36.703][biodb::testThat]
biodb.INFO [2025-03-18 19:28:36.705][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-18 19:28:36.706][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:36.708][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:36.711][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.713][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.715][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:36.717][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:36.719][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:36.720][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:36.722][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:36.724][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:36.725][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-03-18 19:28:36.740][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:36.742][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:36.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.745][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.747][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:36.748][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:36.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:36.752][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:36.754][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:36.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:36.756][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:36.758][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 19:28:36.760][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-18 19:28:36.772][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-18 19:28:36.774][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 19:28:36.775][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:36.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:36.778][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:36.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:36.780][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.782][FUN] Functions in observer BiodbConfig: [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 [2025-03-18 19:28:36.787][biodb::testContext]
biodb.INFO [2025-03-18 19:28:36.789][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:36.791][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-03-18 19:28:36.792][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:36.793][biodb::testContext]
biodb.INFO [2025-03-18 19:28:36.807][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:36.809][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:36.816][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:36.817][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 19:28:36.819][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.823][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 19:28:36.825][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.829][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 19:28:36.831][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.836][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 19:28:36.837][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 19:28:36.838][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 19:28:36.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.842][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[2025-03-18 19:28:36.843][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 19:28:36.844][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 19:28:36.845][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.850][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 19:28:36.851][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 19:28:36.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.855][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[2025-03-18 19:28:36.856][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 19:28:36.858][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 19:28:36.859][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 19:28:36.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.864][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 19:28:36.865][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.871][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 19:28:36.872][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 19:28:36.873][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 19:28:36.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.878][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:36.879][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 19:28:36.881][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 19:28:36.882][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 19:28:36.883][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 19:28:36.885][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 19:28:36.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.890][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 19:28:36.892][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 19:28:36.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.897][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 19:28:36.898][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 19:28:36.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.903][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 19:28:36.905][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 19:28:36.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.910][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 19:28:36.911][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 19:28:36.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.917][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 19:28:36.918][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 19:28:36.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.923][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:36.924][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 19:28:36.956][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 19:28:36.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.963][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 19:28:36.964][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 19:28:36.966][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 19:28:36.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:36.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:36.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:36.971][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 19:28:36.974][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:36.976][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 19:28:36.978][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:36.979][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:36.981][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:36.982][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:36.983][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:36.984][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:36.991][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:36.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:36.995][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:36.996][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 19:28:36.998][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:37.000][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.001][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.002][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:37.002][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:37.002][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:37.002][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:37.002][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:37.003][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:37.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:37.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.010][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.011][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.012][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.013][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.014][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.015][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.017][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 19:28:37.019][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.020][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:37.021][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.022][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:37.024][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.025][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.026][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.028][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.029][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:37.030][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:37.031][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.033][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 19:28:37.034][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:37.035][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.036][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.038][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:37.038][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:37.038][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:37.038][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:37.038][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:37.039][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:37.041][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.042][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:37.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.047][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.049][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.050][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.051][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.052][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.053][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.055][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 19:28:37.057][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.059][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 19:28:37.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.061][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:37.063][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.065][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.066][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.067][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.069][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:37.070][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:37.072][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.073][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 19:28:37.074][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:37.075][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.077][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.078][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.080][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:37.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.083][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:37.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.085][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.086][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.087][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.088][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.089][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.091][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.092][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.093][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 19:28:37.096][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.097][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:37.098][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.099][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:37.101][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.102][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.103][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.105][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.106][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:37.107][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:37.109][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.110][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 19:28:37.111][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:37.113][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.114][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.115][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.116][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:37.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.119][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:37.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.125][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.126][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.127][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.136][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.138][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.141][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:37.143][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.245][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 19:28:37.246][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 19:28:37.248][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 19:28:37.250][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 19:28:37.252][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 19:28:37.254][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:37.256][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:37.258][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:37.260][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 19:28:37.261][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:37.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:37.266][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 19:28:37.267][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:37.269][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:37.271][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 19:28:37.273][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:37.281][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 19:28:37.284][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 19:28:37.286][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 19:28:37.288][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 19:28:37.290][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 19:28:37.292][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 19:28:37.294][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 19:28:37.296][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 19:28:37.298][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 19:28:37.300][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 19:28:37.302][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 19:28:37.304][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 19:28:37.305][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 19:28:37.307][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 19:28:37.309][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 19:28:37.310][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 19:28:37.312][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 19:28:37.313][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 19:28:37.315][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 19:28:37.317][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 19:28:37.319][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 19:28:37.320][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 19:28:37.322][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 19:28:37.324][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 19:28:37.326][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 19:28:37.328][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 19:28:37.330][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 19:28:37.332][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 19:28:37.334][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 19:28:37.336][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 19:28:37.338][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 19:28:37.340][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 19:28:37.342][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 19:28:37.343][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 19:28:37.345][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 19:28:37.347][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 19:28:37.349][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 19:28:37.351][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 19:28:37.353][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 19:28:37.355][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 19:28:37.356][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 19:28:37.358][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 19:28:37.360][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 19:28:37.362][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 19:28:37.364][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 19:28:37.366][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 19:28:37.368][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 19:28:37.370][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 19:28:37.371][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 19:28:37.373][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 19:28:37.375][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 19:28:37.377][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 19:28:37.378][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 19:28:37.380][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 19:28:37.382][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 19:28:37.384][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 19:28:37.386][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 19:28:37.388][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 19:28:37.389][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 19:28:37.391][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 19:28:37.392][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 19:28:37.394][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 19:28:37.396][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 19:28:37.398][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 19:28:37.400][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 19:28:37.402][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 19:28:37.403][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 19:28:37.405][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 19:28:37.407][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:37.408][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:37.409][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.411][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.460][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[2025-03-18 19:28:37.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.483][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[2025-03-18 19:28:37.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.540][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[2025-03-18 19:28:37.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:37.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:37.564][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:37.566][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:37.568][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.570][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.570][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.572][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:37.573][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.574][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-18 19:28:37.575][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.576][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.577][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 19:28:37.578][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:37.579][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.580][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-18 19:28:37.581][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-18 19:28:37.583][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-18 19:28:37.584][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:37.586][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:37.586][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-18 19:28:37.586][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-18 19:28:37.587][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 19:28:37.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.590][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:37.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:37.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:37.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:37.595][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:37.595][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-18 19:28:37.596][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.597][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.598][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:37.600][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:37.601][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-18 19:28:37.603][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:37.605][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:37.607][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:37.609][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:37.614][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:37.615][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-18 19:28:37.617][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:37.619][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:37.620][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:37.622][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:37.624][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-18 19:28:37.625][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-18 19:28:37.626][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:37.626][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-18 19:28:37.628][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:37.629][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:37.630][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-18 19:28:37.632][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-18 19:28:37.633][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:37.635][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:37.636][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:37.638][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:37.640][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:37.641][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:37.643][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-18 19:28:37.645][biodb::testThat]
biodb.INFO [2025-03-18 19:28:37.646][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-03-18 19:28:37.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:37.649][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:37.653][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:37.655][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:37.657][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:37.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:37.660][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:37.662][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:37.664][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:37.665][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:37.666][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:37.669][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-18 19:28:37.677][biodb::testThat]
biodb.INFO [2025-03-18 19:28:37.678][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-03-18 19:28:37.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:37.681][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:37.684][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-18 19:28:37.685][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:37.688][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:37.689][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:37.692][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-18 19:28:37.693][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 19:28:37.696][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-18 19:28:37.697][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:37.699][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:37.708][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:37.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:37.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:37.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:37.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:37.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:37.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:37.724][FUN] Functions in observer BiodbConfig: [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[2025-03-18 19:28:37.728][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:37.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:37.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.733][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:37.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:37.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.741][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:37.742][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:37.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.745][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.747][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:37.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:37.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.754][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.755][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.758][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.760][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.765][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.767][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.771][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:37.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:37.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:37.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:37.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.788][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:37.789][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:37.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.792][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:37.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:37.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.798][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:37.800][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:37.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.804][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:37.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:37.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.810][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:37.811][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:37.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.814][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.815][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:37.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:37.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.821][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:37.823][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:37.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.825][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:37.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.833][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:37.834][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:37.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.837][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.839][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:37.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:37.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.844][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:37.845][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:37.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.848][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:37.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:37.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.855][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:37.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:37.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:37.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:37.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:37.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:37.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.878][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:37.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:37.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.885][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:37.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:37.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:37.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:37.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.897][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:37.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:37.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.901][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:37.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:37.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.908][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:37.910][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:37.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.912][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.914][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:37.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:37.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:37.921][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:37.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.924][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.925][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.931][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:37.933][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:37.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.935][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.937][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:37.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:37.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:37.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:37.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:37.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:37.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:37.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:37.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.964][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.969][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:37.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.975][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.993][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:37.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:37.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:38.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:38.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:38.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:38.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.066][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:38.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.082][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.087][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:38.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.102][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:38.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:38.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:38.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:38.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.118][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:38.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:38.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:38.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:38.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:38.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:38.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:38.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:38.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:38.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:38.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.197][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.218][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:38.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.223][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.228][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.234][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:38.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:38.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:38.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:38.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:38.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:38.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.254][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.275][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:38.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:38.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:38.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:38.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.320][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.330][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:38.368][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-18 19:28:38.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:38.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 19:28:38.395][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 19:28:38.397][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-18 19:28:38.398][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-18 19:28:38.399][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 19:28:38.401][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:38.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:38.403][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.405][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-18 19:28:38.411][biodb::testContext]
biodb.INFO [2025-03-18 19:28:38.413][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:38.414][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-03-18 19:28:38.415][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 19:28:38.417][biodb::testContext]
biodb.INFO [2025-03-18 19:28:38.424][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:38.426][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:38.432][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:38.433][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 19:28:38.435][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.440][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 19:28:38.441][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.446][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 19:28:38.447][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.453][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 19:28:38.454][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 19:28:38.456][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 19:28:38.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.460][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 19:28:38.468][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 19:28:38.471][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.477][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 19:28:38.478][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 19:28:38.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.483][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 19:28:38.484][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 19:28:38.485][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 19:28:38.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.491][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 19:28:38.494][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.498][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 19:28:38.500][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 19:28:38.501][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 19:28:38.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.506][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:38.507][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 19:28:38.508][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 19:28:38.510][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 19:28:38.511][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 19:28:38.513][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 19:28:38.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.518][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 19:28:38.519][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 19:28:38.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.524][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 19:28:38.526][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 19:28:38.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.530][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 19:28:38.531][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 19:28:38.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.536][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 19:28:38.537][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 19:28:38.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.542][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 19:28:38.543][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 19:28:38.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.548][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 19:28:38.550][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 19:28:38.574][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 19:28:38.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.579][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 19:28:38.581][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 19:28:38.582][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 19:28:38.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.586][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 19:28:38.589][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.590][self$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[2025-03-18 19:28:38.591][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.593][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:38.594][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.596][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.597][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.598][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.600][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:38.601][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:38.602][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.604][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 19:28:38.605][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:38.606][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.607][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.609][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:38.609][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:38.609][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:38.609][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:38.609][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:38.610][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:38.612][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.615][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:38.616][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.617][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.619][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.620][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:38.623][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:38.624][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.626][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.627][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 19:28:38.630][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.640][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:38.641][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.643][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:38.645][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.646][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.648][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.649][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.650][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:38.652][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:38.653][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.654][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 19:28:38.655][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:38.656][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.658][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.659][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:38.659][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 19:28:38.659][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 19:28:38.659][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 19:28:38.659][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 19:28:38.661][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:38.662][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.664][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:38.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.668][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.669][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.670][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:38.672][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:38.673][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.674][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.676][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 19:28:38.678][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.679][self$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[2025-03-18 19:28:38.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:38.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.685][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.686][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.687][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.689][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 19:28:38.690][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:38.691][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.692][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 19:28:38.694][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:38.695][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.696][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.698][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.699][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:38.700][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.703][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:38.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.708][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.709][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:38.711][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:38.712][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.713][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.714][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 19:28:38.717][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.718][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 19:28:38.720][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.721][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:38.722][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.724][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.725][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.726][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.728][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 19:28:38.729][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:38.731][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.732][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 19:28:38.733][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:38.735][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.736][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:38.737][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.739][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 19:28:38.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.743][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:38.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:38.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:38.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:38.747][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.748][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:38.749][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:38.750][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:38.751][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:38.753][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:38.754][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.766][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[2025-03-18 19:28:38.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.814][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[2025-03-18 19:28:38.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.842][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[2025-03-18 19:28:38.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:38.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:38.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:38.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:38.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:38.862][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 19:28:38.863][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 19:28:38.865][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 19:28:38.867][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 19:28:38.869][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 19:28:38.871][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:38.872][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:38.874][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:38.876][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 19:28:38.878][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:38.880][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:38.882][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 19:28:38.883][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 19:28:38.886][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 19:28:38.887][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 19:28:38.889][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:38.891][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 19:28:38.893][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 19:28:38.895][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 19:28:38.897][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 19:28:38.899][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 19:28:38.901][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 19:28:38.903][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 19:28:38.905][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 19:28:38.907][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 19:28:38.909][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 19:28:38.919][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 19:28:38.922][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 19:28:38.924][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 19:28:38.926][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 19:28:38.928][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 19:28:38.930][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 19:28:38.932][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 19:28:38.934][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 19:28:38.936][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 19:28:38.938][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 19:28:38.940][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 19:28:38.942][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 19:28:38.944][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 19:28:38.947][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 19:28:38.949][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 19:28:38.951][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 19:28:38.953][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 19:28:38.955][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 19:28:38.957][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 19:28:38.959][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 19:28:38.960][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 19:28:38.963][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 19:28:38.965][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 19:28:38.967][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 19:28:38.969][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 19:28:38.971][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 19:28:38.973][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 19:28:38.974][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 19:28:38.976][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 19:28:38.978][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 19:28:38.980][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 19:28:38.981][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 19:28:38.983][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 19:28:38.985][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 19:28:38.986][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 19:28:38.988][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 19:28:38.990][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 19:28:38.992][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 19:28:38.994][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 19:28:38.996][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 19:28:38.998][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 19:28:39.000][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 19:28:39.002][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 19:28:39.003][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 19:28:39.005][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 19:28:39.007][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 19:28:39.009][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 19:28:39.011][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 19:28:39.013][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 19:28:39.015][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 19:28:39.017][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 19:28:39.019][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 19:28:39.020][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 19:28:39.022][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 19:28:39.024][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 19:28:39.026][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 19:28:39.027][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 19:28:39.029][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 19:28:39.031][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-18 19:28:39.032][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 19:28:39.034][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.036][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.079][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.DEBUG[2025-03-18 19:28:39.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.087][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[2025-03-18 19:28:39.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.146][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[2025-03-18 19:28:39.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 19:28:39.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:39.189][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-18 19:28:39.191][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:39.201][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:39.202][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 19:28:39.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:39.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 19:28:39.207][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:39.208][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-18 19:28:39.210][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:39.211][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 19:28:39.212][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 19:28:39.214][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 19:28:39.215][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:39.217][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-18 19:28:39.218][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-18 19:28:39.219][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-18 19:28:39.221][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 19:28:39.222][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 19:28:39.222][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-18 19:28:39.222][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-18 19:28:39.223][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 19:28:39.225][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:39.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:39.227][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 19:28:39.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 19:28:39.230][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 19:28:39.231][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 19:28:39.232][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:39.232][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-18 19:28:39.233][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:39.234][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:39.235][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 19:28:39.237][self$setPropertyValue]
biodb.DEBUG[2025-03-18 19:28:39.238][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-18 19:28:39.240][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 19:28:39.243][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 19:28:39.246][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 19:28:39.248][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 19:28:39.252][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:39.253][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-18 19:28:39.255][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:39.257][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:39.259][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:39.260][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:39.262][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-18 19:28:39.263][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-18 19:28:39.265][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-18 19:28:39.265][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-18 19:28:39.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 19:28:39.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 19:28:39.269][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-18 19:28:39.270][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-18 19:28:39.271][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-18 19:28:39.273][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:39.275][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:39.277][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:39.278][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-18 19:28:39.280][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 19:28:39.281][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-18 19:28:39.283][biodb::testThat]
biodb.INFO [2025-03-18 19:28:39.284][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-03-18 19:28:39.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 19:28:39.287][biodb::testThat]
biodb.DEBUG[2025-03-18 19:28:39.289][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-18 19:28:39.290][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-18 19:28:39.292][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-18 19:28:39.295][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:39.297][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:39.299][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:39.301][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:39.303][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:39.304][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:39.306][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:39.308][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:39.309][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:39.310][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:39.312][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-03-18 19:28:39.314][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-18 19:28:39.315][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:39.317][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:39.319][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:39.322][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-18 19:28:39.324][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 19:28:39.326][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-18 19:28:39.328][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:39.329][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:39.331][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:39.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:39.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:39.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:39.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:39.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:39.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:39.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:39.361][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.362][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.365][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.373][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.374][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.376][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.384][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.386][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.388][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.395][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.396][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.399][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.410][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.418][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.419][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.422][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.429][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.431][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.433][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.435][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.440][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.441][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.446][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.451][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.453][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.456][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.463][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.465][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.469][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.475][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:39.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:39.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:39.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.487][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:39.488][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:39.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.491][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:39.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:39.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.506][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.508][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.511][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.519][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.520][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.522][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.530][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.532][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.541][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:39.543][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:39.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.545][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.546][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:39.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.552][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:39.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:39.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.556][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:39.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:39.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.563][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:39.564][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.567][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.591][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.596][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.602][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:39.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.607][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.612][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:39.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:39.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.690][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:39.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.706][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.717][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.723][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.728][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:39.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:39.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:39.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.737][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:39.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:39.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.742][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:39.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:39.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:39.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:39.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:39.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:39.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:39.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:39.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.794][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.799][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.811][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:39.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.850][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.861][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.866][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.872][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.877][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:39.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:39.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:39.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.898][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:39.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:39.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:39.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:39.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.966][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:39.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:39.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.014][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-18 19:28:40.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.027][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.038][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:40.039][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:40.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:40.057][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-18 19:28:40.059][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-18 19:28:40.061][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.063][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-18 19:28:40.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-18 19:28:40.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 19:28:40.069][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-18 19:28:40.071][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 19:28:40.072][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-18 19:28:40.073][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-18 19:28:40.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:40.095][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.099][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.107][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.116][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.121][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.123][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.129][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.131][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.133][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.140][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.142][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.146][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.152][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.153][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.155][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.162][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.163][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.166][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.176][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.178][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.184][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.185][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.188][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.189][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.194][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.196][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.198][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.205][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.206][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.209][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.216][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:40.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:40.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:40.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:40.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:40.228][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:40.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:40.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:40.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.238][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.242][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.253][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.267][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.279][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.281][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.283][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.284][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.290][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:40.291][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:40.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.294][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.295][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.300][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:40.302][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.304][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.306][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-18 19:28:40.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.326][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.331][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.336][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 19:28:40.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.341][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.352][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-18 19:28:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 19:28:40.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-18 19:28:40.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.389][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.393][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-18 19:28:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-18 19:28:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.440][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-18 19:28:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.445][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:40.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 19:28:40.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 19:28:40.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:40.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:40.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 19:28:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 19:28:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.507][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.512][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 19:28:40.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 19:28:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-18 19:28:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.576][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.584][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-18 19:28:40.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:40.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:40.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 19:28:40.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 19:28:40.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.603][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:40.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-18 19:28:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 19:28:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 19:28:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 19:28:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.648][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.653][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.663][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-18 19:28:40.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 19:28:40.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 19:28:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.705][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-18 19:28:40.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.726][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:40.727][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:40.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.742][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[2025-03-18 19:28:40.748][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-18 19:28:40.749][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-18 19:28:40.751][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-18 19:28:40.753][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.759][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:40.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.764][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:40.766][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:40.768][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:40.769][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:40.771][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:40.772][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:40.773][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:40.776][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.786][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.795][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.799][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.808][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:40.809][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:40.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 19:28:40.831][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.835][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.879][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-18 19:28:40.881][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:40.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 19:28:40.899][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-18 19:28:40.900][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-18 19:28:40.901][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-18 19:28:40.903][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.904][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.906][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-18 19:28:40.908][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-18 19:28:40.909][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-18 19:28:40.910][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-18 19:28:40.911][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-18 19:28:40.913][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-18 19:28:40.914][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-18 19:28:40.915][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-18 19:28:40.916][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-18 19:28:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.927][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:40.952][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-18 19:28:40.953][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-03-18 19:28:40.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:40.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:40.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:40.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:40.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:40.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:40.973][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[2025-03-18 19:28:40.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.980][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:40.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:40.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:40.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:41.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 19:28:41.004][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-18 19:28:41.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-18 19:28:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 19:28:41.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 19:28:41.010][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-18 19:28:41.011][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-18 19:28:41.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 19:28:41.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:41.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:41.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:41.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:41.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:41.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-18 19:28:41.036][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 19:28:41.038][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-18 19:28:41.039][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-18 19:28:41.041][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 19:28:41.042][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 19:28:41.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 19:28:41.045][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 19:28:41.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 19:28:41.047][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 19:28:41.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 11.273   0.704  20.951

CHECK results for biodbHmdb on lconway

Summary

Command output

Installation output

Tests output

Example timings