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

Hostname	OS	Arch (*)	R version	Installed pkgs
teran2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4481
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4479
palomino8	Windows Server 2022 Datacenter	x64	4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"	4359
lconway	macOS 12.7.1 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4539
kunpeng2	Linux (openEuler 22.03 LTS-SP1)	aarch64	4.4.1 (2024-06-14) -- "Race for Your Life"	4493
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: 1.12.0

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

StartedAt: 2024-11-19 19:55:42 -0500 (Tue, 19 Nov 2024)

EndedAt: 2024-11-19 20:01:12 -0500 (Tue, 19 Nov 2024)

EllapsedTime: 330.4 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 1

Command output

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


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
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/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-11-19 20:00:34.612][biodb::testContext]
biodb.INFO [2024-11-19 20:00:34.616][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:34.617][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-11-19 20:00:34.619][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:34.620][biodb::testContext]
biodb.INFO [2024-11-19 20:00:34.622][biodb::testThat]
biodb.INFO [2024-11-19 20:00:34.623][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-11-19 20:00:34.624][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:34.626][biodb::testThat]
biodb.INFO [2024-11-19 20:00:34.808][biodb::testContext]
biodb.INFO [2024-11-19 20:00:34.809][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:34.811][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-19 20:00:34.812][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:34.813][biodb::testContext]
biodb.INFO [2024-11-19 20:00:34.822][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:34.825][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:34.832][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:34.833][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-19 20:00:34.834][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.838][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-19 20:00:34.859][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.862][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-19 20:00:34.863][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.868][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-19 20:00:34.869][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-19 20:00:34.870][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-19 20:00:34.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.873][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-19 20:00:34.874][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-19 20:00:34.875][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.879][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-19 20:00:34.880][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-19 20:00:34.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.883][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-19 20:00:34.884][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-19 20:00:34.885][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-19 20:00:34.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.888][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-19 20:00:34.889][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.893][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-19 20:00:34.893][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-19 20:00:34.894][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-19 20:00:34.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.897][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:34.899][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-19 20:00:34.899][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-19 20:00:34.900][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-19 20:00:34.901][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-19 20:00:34.902][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-19 20:00:34.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.906][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-19 20:00:34.907][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-19 20:00:34.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.910][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-19 20:00:34.911][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-19 20:00:34.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.914][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-19 20:00:34.915][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-19 20:00:34.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.919][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-19 20:00:34.920][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-19 20:00:34.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.924][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-19 20:00:34.925][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-19 20:00:34.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.928][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:34.929][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-19 20:00:34.949][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-19 20:00:34.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.953][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-19 20:00:34.954][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-19 20:00:34.955][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-19 20:00:34.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:34.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:34.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:34.961][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-19 20:00:34.998][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.016][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-19 20:00:35.018][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.019][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:35.021][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.022][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.023][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.024][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.025][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:35.026][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:35.026][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.027][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-19 20:00:35.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:35.029][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.030][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.031][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:35.031][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:35.031][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:35.031][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:35.031][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:35.032][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:35.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.035][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:35.036][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.037][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.037][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.044][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.045][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.047][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.048][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.049][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.051][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-19 20:00:35.053][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.054][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:35.055][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.056][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:35.058][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.059][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.060][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.061][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.062][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:35.064][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:35.065][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.067][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-19 20:00:35.068][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:35.069][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.070][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.072][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:35.072][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:35.072][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:35.072][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:35.072][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:35.073][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:35.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.077][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:35.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.080][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.081][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.082][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.083][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.084][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.084][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.086][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-19 20:00:35.088][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.089][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-19 20:00:35.089][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.090][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:35.091][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.092][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.093][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.094][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.095][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:35.096][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:35.097][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.098][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-19 20:00:35.099][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:35.100][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.101][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.102][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:35.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.106][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:35.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.110][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.111][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.112][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.113][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.114][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.115][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-19 20:00:35.117][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.118][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:35.119][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.121][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:35.122][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.123][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.124][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.125][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.126][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:35.127][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:35.128][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.129][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-19 20:00:35.130][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:35.131][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.132][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.133][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.134][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:35.135][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.136][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.136][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:35.137][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.138][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.139][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.140][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.140][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.141][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.142][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.143][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.147][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:35.149][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.224][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-19 20:00:35.235][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-19 20:00:35.237][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-19 20:00:35.238][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-19 20:00:35.239][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-19 20:00:35.241][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:35.242][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:35.243][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:35.244][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-19 20:00:35.245][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:35.247][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:35.248][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-19 20:00:35.249][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:35.250][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:35.252][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-19 20:00:35.253][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:35.255][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-19 20:00:35.256][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-19 20:00:35.257][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-19 20:00:35.259][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-19 20:00:35.261][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-19 20:00:35.263][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-19 20:00:35.264][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-19 20:00:35.266][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-19 20:00:35.267][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-19 20:00:35.269][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-19 20:00:35.270][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-19 20:00:35.271][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-19 20:00:35.272][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-19 20:00:35.274][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-19 20:00:35.275][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-19 20:00:35.277][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-19 20:00:35.278][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-19 20:00:35.280][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-19 20:00:35.281][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-19 20:00:35.282][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-19 20:00:35.284][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-19 20:00:35.286][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-19 20:00:35.288][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-19 20:00:35.289][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-19 20:00:35.290][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-19 20:00:35.291][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-19 20:00:35.293][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-19 20:00:35.294][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-19 20:00:35.296][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-19 20:00:35.297][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-19 20:00:35.299][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-19 20:00:35.300][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-19 20:00:35.301][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-19 20:00:35.303][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-19 20:00:35.304][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-19 20:00:35.306][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-19 20:00:35.307][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-19 20:00:35.309][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-19 20:00:35.310][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-19 20:00:35.311][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-19 20:00:35.312][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-19 20:00:35.314][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-19 20:00:35.315][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-19 20:00:35.316][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-19 20:00:35.318][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-19 20:00:35.319][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-19 20:00:35.320][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-19 20:00:35.322][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-19 20:00:35.323][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-19 20:00:35.324][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-19 20:00:35.326][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-19 20:00:35.327][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-19 20:00:35.329][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-19 20:00:35.330][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-19 20:00:35.332][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-19 20:00:35.333][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-19 20:00:35.335][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-19 20:00:35.337][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-19 20:00:35.338][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-19 20:00:35.340][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-19 20:00:35.341][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-19 20:00:35.343][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-19 20:00:35.344][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-19 20:00:35.346][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-19 20:00:35.347][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-19 20:00:35.349][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-19 20:00:35.350][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-19 20:00:35.355][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-19 20:00:35.357][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:35.360][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:35.360][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.362][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.371][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[2024-11-19 20:00:35.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.459][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[2024-11-19 20:00:35.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.497][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[2024-11-19 20:00:35.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:35.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:35.507][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:35.519][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:35.532][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.534][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:35.537][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.538][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-19 20:00:35.539][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.541][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-19 20:00:35.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:35.543][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.544][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-19 20:00:35.544][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-19 20:00:35.545][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-19 20:00:35.546][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:35.547][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:35.547][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-19 20:00:35.547][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-19 20:00:35.548][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-19 20:00:35.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.550][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:35.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:35.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:35.553][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:35.554][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:35.554][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-19 20:00:35.555][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.556][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.556][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:35.557][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:35.562][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-19 20:00:35.563][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:35.565][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:35.567][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:35.568][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:35.590][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:35.591][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-19 20:00:35.596][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:35.611][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:35.626][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:35.627][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:35.629][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-19 20:00:35.641][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-19 20:00:35.642][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:35.642][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-19 20:00:35.643][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:35.645][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:35.646][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-19 20:00:35.647][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-19 20:00:35.649][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:35.672][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:35.674][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:35.675][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:35.676][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:35.677][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:35.678][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-19 20:00:35.697][biodb::testThat]
biodb.INFO [2024-11-19 20:00:35.698][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-11-19 20:00:35.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:35.710][biodb::testThat]
biodb.TRACE[2024-11-19 20:00:35.715][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-11-19 20:00:35.717][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:35.722][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:35.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:35.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:35.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:35.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:35.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:35.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:35.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:35.770][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:35.772][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:35.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:35.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:35.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.804][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:35.805][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:35.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.842][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:35.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:35.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.846][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:35.846][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:35.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.848][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.849][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:35.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:35.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.853][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:35.855][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:35.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.856][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.869][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:35.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:35.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:35.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:35.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.876][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:35.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.880][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:35.881][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:35.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.884][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:35.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:35.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.900][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:35.901][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:35.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:35.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:35.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.908][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:35.909][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:35.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.920][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:35.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:35.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.924][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:35.925][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:35.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:35.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:35.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.932][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:35.933][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:35.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:35.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:35.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.940][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:35.941][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:35.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.943][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:35.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:35.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.948][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:35.949][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:35.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.955][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:35.956][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:35.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.957][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:35.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:35.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.965][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:35.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:35.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.969][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:35.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:35.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:35.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.976][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:35.977][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:35.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.979][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.980][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:35.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.983][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:35.984][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:35.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:35.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.992][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:35.993][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:35.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.995][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:35.996][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:35.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.065][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.069][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.076][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:36.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.107][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.111][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.116][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.133][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.137][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.165][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.198][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.207][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.246][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.250][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.289][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:36.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.340][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.352][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:36.380][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-19 20:00:36.383][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:36.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.387][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:36.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:36.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.421][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.451][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.501][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:36.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:36.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.517][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.521][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.524][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.528][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.535][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.537][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:36.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.559][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.560][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.561][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:36.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.575][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.579][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.583][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.587][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.587][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.589][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:36.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.626][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:36.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.666][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.670][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:36.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.707][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.709][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:36.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:36.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.739][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.743][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.745][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.747][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:36.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:36.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.773][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.775][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.777][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:36.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:36.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.803][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.803][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.806][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:36.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.826][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.827][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.829][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:36.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.854][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.862][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.866][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.867][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.886][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.898][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.899][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:36.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.924][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.928][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.929][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.953][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.958][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.962][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.966][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:36.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.994][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:36.995][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:36.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:36.998][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.034][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.035][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.052][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.057][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.061][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.065][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.066][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.067][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.068][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.081][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.084][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.090][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.092][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.098][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.099][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.110][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.114][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.115][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.117][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.133][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.134][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.141][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.142][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.143][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.150][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.151][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.161][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.162][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.165][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.171][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.174][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.193][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.198][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.199][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.200][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.208][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.212][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.213][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.215][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.230][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.231][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.232][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.247][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.248][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.259][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.260][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.261][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.279][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.281][ef$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:37.293][biodb::testThat]
biodb.INFO [2024-11-19 20:00:37.294][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-19 20:00:37.295][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:37.296][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:37.315][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-19 20:00:37.334][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:37.351][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:37.352][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:37.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-19 20:00:37.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-19 20:00:37.362][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-19 20:00:37.363][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:37.382][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:37.383][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:37.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:37.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:37.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:37.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:37.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:37.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:37.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:37.403][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.404][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.405][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.410][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.411][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.413][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.414][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.419][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.419][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.421][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.422][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.426][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.427][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.430][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.454][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.460][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.466][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.467][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.468][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.469][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.473][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.474][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.476][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.480][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.481][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.483][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.484][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.487][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.488][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.491][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.494][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.506][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.508][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.509][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.513][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.520][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.523][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.530][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.536][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.537][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.539][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.543][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.544][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.546][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.547][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.550][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.551][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.553][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.554][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.557][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:37.558][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.561][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:37.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.587][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.591][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.594][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:37.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.598][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.612][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:37.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:37.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.641][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.645][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.650][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:37.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:37.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.666][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:37.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.688][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:37.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:37.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.695][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:37.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:37.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:37.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:37.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.729][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:37.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.768][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.772][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.775][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:37.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.778][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.782][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.787][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:37.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.790][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.793][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.797][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.815][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:37.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:37.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.838][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.842][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.849][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:37.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:37.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:37.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:37.878][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-19 20:00:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-19 20:00:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-19 20:00:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-19 20:00:37.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-19 20:00:37.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-19 20:00:37.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-19 20:00:37.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:37.903][biodb::testThat]
biodb.INFO [2024-11-19 20:00:37.904][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-19 20:00:37.905][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:37.905][biodb::testThat]
biodb.TRACE[2024-11-19 20:00:37.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.911][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:37.912][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-11-19 20:00:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:37.959][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-11-19 20:00:37.960][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-19 20:00:37.961][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-19 20:00:37.962][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-19 20:00:37.964][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:37.966][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:37.967][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:37.968][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:37.969][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:37.970][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:37.971][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:37.974][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:37.975][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:37.976][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:37.976][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:37.978][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:37.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:37.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:37.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:37.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:37.993][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:37.994][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:37.995][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-19 20:00:38.012][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.013][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.014][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.015][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-11-19 20:00:38.039][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.043][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.057][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2024-11-19 20:00:38.108][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-19 20:00:38.109][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-19 20:00:38.111][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-19 20:00:38.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.126][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.127][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:38.129][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.130][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:38.144][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:38.145][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:38.146][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:38.147][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:38.148][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:38.149][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:38.151][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.156][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:38.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:38.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.173][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:38.174][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:38.175][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-19 20:00:38.190][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.192][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.194][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.195][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-11-19 20:00:38.212][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.217][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.222][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.228][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-11-19 20:00:38.229][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-11-19 20:00:38.230][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-19 20:00:38.231][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-19 20:00:38.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.234][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.236][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:38.238][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.239][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:38.240][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:38.241][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:38.242][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:38.243][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:38.245][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:38.246][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:38.247][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.251][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.255][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.258][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:38.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.262][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:38.263][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:38.263][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-11-19 20:00:38.286][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.287][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-11-19 20:00:38.288][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:38.289][biodb::testThat]
biodb.TRACE[2024-11-19 20:00:38.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.327][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-19 20:00:38.328][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-19 20:00:38.329][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-19 20:00:38.331][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.332][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.333][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:38.340][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:38.341][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:38.342][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:38.344][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:38.344][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:38.345][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:38.346][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:38.347][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:38.363][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:38.364][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-11-19 20:00:38.385][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.386][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-11-19 20:00:38.387][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:38.389][biodb::testThat]
biodb.TRACE[2024-11-19 20:00:38.413][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:38.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:38.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.427][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:38.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:38.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-19 20:00:38.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:38.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-19 20:00:38.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:38.494][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:38.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-19 20:00:38.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:38.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:38.507][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.508][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-19 20:00:38.509][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:38.510][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.518][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.519][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-19 20:00:38.520][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:38.521][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.530][biodb::testThat]
biodb.INFO [2024-11-19 20:00:38.531][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-19 20:00:38.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:38.533][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:38.538][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-11-19 20:00:52.746][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-11-19 20:00:52.781][biodb::testThat]
biodb.INFO [2024-11-19 20:00:52.782][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-19 20:00:52.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:52.785][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:54.957][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-11-19 20:00:54.990][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:54.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:54.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:54.996][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.011][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:55.012][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:55.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.014][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.015][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:55.017][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:55.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.018][ef$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:55.020][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.021][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-11-19 20:00:55.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:55.022][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:55.024][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-19 20:00:55.162][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:55.163][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.165][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:55.184][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-19 20:00:55.186][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-19 20:00:55.187][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-19 20:00:55.189][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:55.190][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.192][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:55.194][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:55.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:55.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:55.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:55.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:55.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:55.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:55.209][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.214][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:55.249][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-19 20:00:55.254][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-19 20:00:55.319][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.320][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-19 20:00:55.324][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:55.326][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:55.339][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-11-19 20:00:55.342][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-11-19 20:00:55.344][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:55.346][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.347][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:55.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-11-19 20:00:55.351][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-19 20:00:55.353][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-19 20:00:55.354][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:55.356][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.357][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:55.359][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:55.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:55.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:55.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:55.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:55.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:55.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:55.377][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.383][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:55.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:55.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:55.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:55.421][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-19 20:00:55.422][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-19 20:00:55.423][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-11-19 20:00:55.443][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.445][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-11-19 20:00:55.446][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:55.449][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.490][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.492][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-11-19 20:00:55.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:55.494][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:55.497][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.499][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.500][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:55.502][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.503][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:55.505][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:55.506][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:55.507][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:55.508][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-11-19 20:00:55.521][biodb::testThat]
biodb.INFO [2024-11-19 20:00:55.522][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-11-19 20:00:55.524][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:55.525][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:55.528][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.530][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.531][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:55.533][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:55.534][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:55.537][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:55.538][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:55.539][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:55.540][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-11-19 20:00:55.555][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:55.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:55.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.560][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:55.561][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:55.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.564][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:55.566][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:55.567][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:55.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:55.570][ef$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:55.571][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-19 20:00:55.573][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-19 20:00:55.584][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-19 20:00:55.585][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-19 20:00:55.586][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:55.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:55.588][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:55.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:55.591][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-19 20:00:55.598][biodb::testContext]
biodb.INFO [2024-11-19 20:00:55.599][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:55.601][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-11-19 20:00:55.602][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:55.605][biodb::testContext]
biodb.INFO [2024-11-19 20:00:55.614][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:55.616][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:55.622][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:55.624][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-19 20:00:55.625][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.630][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-19 20:00:55.662][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.667][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-19 20:00:55.669][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.673][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-19 20:00:55.674][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-19 20:00:55.675][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-19 20:00:55.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.679][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-19 20:00:55.681][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-19 20:00:55.682][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.687][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-19 20:00:55.689][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-19 20:00:55.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.692][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[2024-11-19 20:00:55.694][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-19 20:00:55.695][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-19 20:00:55.696][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-19 20:00:55.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.701][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-19 20:00:55.702][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.705][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-19 20:00:55.707][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-19 20:00:55.708][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-19 20:00:55.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.712][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:55.713][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-19 20:00:55.714][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-19 20:00:55.715][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-19 20:00:55.717][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-19 20:00:55.718][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-19 20:00:55.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.723][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-19 20:00:55.724][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-19 20:00:55.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.729][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-19 20:00:55.729][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-19 20:00:55.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.732][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[2024-11-19 20:00:55.733][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-19 20:00:55.735][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-19 20:00:55.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.739][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-19 20:00:55.741][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-19 20:00:55.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.745][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-19 20:00:55.746][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-19 20:00:55.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.751][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:55.752][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-19 20:00:55.828][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-19 20:00:55.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.833][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-19 20:00:55.835][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-19 20:00:55.836][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-19 20:00:55.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:55.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:55.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:55.841][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-19 20:00:55.843][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.845][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-19 20:00:55.846][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.847][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:55.849][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.850][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.852][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.854][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:55.856][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:55.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.858][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-19 20:00:55.860][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:55.868][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.870][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.872][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:55.872][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:55.872][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:55.872][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:55.872][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:55.873][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:55.875][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.875][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.876][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:55.877][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.878][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.880][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.881][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.882][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:55.884][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:55.885][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.886][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.888][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-19 20:00:55.890][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.891][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:55.893][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.894][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:55.895][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.897][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.898][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.900][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:55.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:55.902][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.903][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-19 20:00:55.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:55.906][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.907][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.908][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:55.908][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:55.908][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:55.908][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:55.908][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:55.909][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:55.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.913][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:55.914][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.917][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.918][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.919][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:55.920][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:55.921][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.923][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.925][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-19 20:00:55.927][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.929][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-19 20:00:55.930][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.931][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:55.933][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.934][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.935][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.937][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.938][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:55.939][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:55.941][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.942][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-19 20:00:55.944][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:55.945][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.946][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.948][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:55.950][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.952][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.953][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:55.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.956][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.957][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.958][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.960][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:55.961][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:55.963][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.964][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.966][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-19 20:00:55.968][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.969][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:55.971][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.972][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:55.973][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.975][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.976][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.977][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.978][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:55.980][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:55.981][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:55.983][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-19 20:00:55.984][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:55.985][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.987][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:55.988][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.989][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:55.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.993][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:55.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:55.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:55.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:55.998][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:55.999][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:56.000][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:56.002][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:56.003][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:56.005][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:56.006][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.019][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[2024-11-19 20:00:56.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.038][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[2024-11-19 20:00:56.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.061][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[2024-11-19 20:00:56.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.079][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[2024-11-19 20:00:56.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.110][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-19 20:00:56.111][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-19 20:00:56.112][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-19 20:00:56.114][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-19 20:00:56.115][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-19 20:00:56.117][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:56.118][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:56.120][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:56.121][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-19 20:00:56.122][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:56.124][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:56.125][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-19 20:00:56.127][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:56.128][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:56.130][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-19 20:00:56.131][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:56.132][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-19 20:00:56.133][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-19 20:00:56.135][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-19 20:00:56.136][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-19 20:00:56.142][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-19 20:00:56.144][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-19 20:00:56.146][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-19 20:00:56.147][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-19 20:00:56.148][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-19 20:00:56.149][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-19 20:00:56.151][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-19 20:00:56.152][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-19 20:00:56.153][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-19 20:00:56.154][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-19 20:00:56.156][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-19 20:00:56.157][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-19 20:00:56.158][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-19 20:00:56.160][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-19 20:00:56.161][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-19 20:00:56.163][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-19 20:00:56.164][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-19 20:00:56.166][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-19 20:00:56.168][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-19 20:00:56.169][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-19 20:00:56.171][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-19 20:00:56.173][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-19 20:00:56.174][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-19 20:00:56.176][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-19 20:00:56.177][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-19 20:00:56.179][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-19 20:00:56.181][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-19 20:00:56.182][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-19 20:00:56.184][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-19 20:00:56.185][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-19 20:00:56.186][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-19 20:00:56.188][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-19 20:00:56.189][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-19 20:00:56.191][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-19 20:00:56.193][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-19 20:00:56.194][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-19 20:00:56.195][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-19 20:00:56.196][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-19 20:00:56.198][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-19 20:00:56.199][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-19 20:00:56.200][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-19 20:00:56.202][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-19 20:00:56.204][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-19 20:00:56.205][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-19 20:00:56.206][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-19 20:00:56.208][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-19 20:00:56.209][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-19 20:00:56.210][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-19 20:00:56.212][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-19 20:00:56.213][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-19 20:00:56.214][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-19 20:00:56.215][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-19 20:00:56.217][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-19 20:00:56.218][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-19 20:00:56.220][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-19 20:00:56.221][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-19 20:00:56.222][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-19 20:00:56.224][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-19 20:00:56.225][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-19 20:00:56.226][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-19 20:00:56.228][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-19 20:00:56.229][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-19 20:00:56.230][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-19 20:00:56.231][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-19 20:00:56.233][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:56.234][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:56.235][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.237][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:56.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:56.355][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:56.357][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:56.359][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:56.366][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-19 20:00:56.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:56.368][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:56.369][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:56.370][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-19 20:00:56.371][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:56.372][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:56.374][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-19 20:00:56.375][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:56.376][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:56.377][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-19 20:00:56.378][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-19 20:00:56.380][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-19 20:00:56.381][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:56.382][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:56.382][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-19 20:00:56.382][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-19 20:00:56.383][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-19 20:00:56.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:56.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:56.386][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:56.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:56.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:56.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:56.391][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:56.391][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-19 20:00:56.393][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:56.393][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:56.394][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:56.396][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:56.397][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-19 20:00:56.400][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:56.402][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:56.404][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:56.406][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:56.410][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:56.412][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-19 20:00:56.413][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:56.415][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:56.417][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:56.419][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:56.420][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-19 20:00:56.422][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-19 20:00:56.423][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:56.423][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-19 20:00:56.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:56.426][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:56.427][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-19 20:00:56.428][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-19 20:00:56.430][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:56.432][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:56.433][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:56.434][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:56.436][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:56.437][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:56.438][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-19 20:00:56.440][biodb::testThat]
biodb.INFO [2024-11-19 20:00:56.441][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-11-19 20:00:56.442][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:56.443][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:56.447][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:56.449][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:56.451][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:56.452][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:56.453][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:56.455][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:56.456][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:56.457][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:56.459][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:56.462][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-19 20:00:56.470][biodb::testThat]
biodb.INFO [2024-11-19 20:00:56.472][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-11-19 20:00:56.473][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:56.474][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:56.477][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-19 20:00:56.478][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:56.481][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:56.483][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:56.485][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-19 20:00:56.487][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-19 20:00:56.489][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-19 20:00:56.490][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:56.492][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:56.493][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:56.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:56.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:56.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:56.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:56.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:56.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:56.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:56.517][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:56.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:56.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:56.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:56.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.526][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.528][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.530][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.532][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.537][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.538][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.540][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.542][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.547][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.548][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.550][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.551][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.558][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.568][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.569][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.578][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.579][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.583][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.587][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.588][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.590][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.591][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.597][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.598][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.602][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.607][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.608][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.610][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.611][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.616][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:56.617][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:56.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.620][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:56.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:56.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.629][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:56.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:56.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.643][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.649][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.658][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:56.659][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:56.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:56.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:56.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.667][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:56.668][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:56.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.670][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:56.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:56.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:56.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:56.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.680][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:56.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:56.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.685][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:56.686][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.688][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.690][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:56.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:56.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:56.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:56.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:56.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:56.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:56.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.705][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.709][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.713][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:56.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.717][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.721][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.724][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:56.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:56.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:56.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.760][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.763][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:56.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.789][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.793][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:56.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.802][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.806][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.811][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:56.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.815][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:56.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:56.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:56.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.827][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:56.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:56.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:56.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:56.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:56.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:56.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:56.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:56.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:56.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:56.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:56.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:56.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:56.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.878][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.884][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.889][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:56.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:56.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:56.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:56.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:56.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:56.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:56.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.930][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.935][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.939][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.944][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.949][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.953][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:56.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:56.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:56.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.961][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:56.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:56.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:56.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:56.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.979][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:56.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:56.998][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:56.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:56.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:57.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:57.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:57.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:57.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:57.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:57.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:57.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:57.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.025][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.029][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.044][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:57.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:57.074][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-19 20:00:57.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:57.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:57.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-19 20:00:57.098][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-19 20:00:57.099][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-19 20:00:57.101][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-19 20:00:57.101][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-19 20:00:57.102][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.104][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.106][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-19 20:00:57.113][biodb::testContext]
biodb.INFO [2024-11-19 20:00:57.114][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:57.115][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-11-19 20:00:57.116][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-19 20:00:57.117][biodb::testContext]
biodb.INFO [2024-11-19 20:00:57.143][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:57.147][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:57.158][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:57.159][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-19 20:00:57.160][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.163][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[2024-11-19 20:00:57.164][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-19 20:00:57.165][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.169][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-19 20:00:57.170][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.173][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-19 20:00:57.174][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-19 20:00:57.175][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-19 20:00:57.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.180][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-19 20:00:57.180][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-19 20:00:57.182][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.186][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-19 20:00:57.188][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-19 20:00:57.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.196][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-19 20:00:57.197][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-19 20:00:57.198][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-19 20:00:57.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.210][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-19 20:00:57.211][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.216][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-19 20:00:57.217][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-19 20:00:57.218][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-19 20:00:57.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.222][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:57.223][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-19 20:00:57.224][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-19 20:00:57.225][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-19 20:00:57.226][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-19 20:00:57.228][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-19 20:00:57.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.232][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-19 20:00:57.233][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-19 20:00:57.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.237][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-19 20:00:57.238][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-19 20:00:57.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.243][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-19 20:00:57.245][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-19 20:00:57.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.250][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-19 20:00:57.251][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-19 20:00:57.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.255][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-19 20:00:57.256][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-19 20:00:57.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.260][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-19 20:00:57.261][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-19 20:00:57.342][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-19 20:00:57.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.348][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-19 20:00:57.349][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-19 20:00:57.350][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-19 20:00:57.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.357][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-19 20:00:57.360][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.361][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-19 20:00:57.374][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.376][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:57.378][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.379][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.381][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.382][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.384][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:57.385][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:57.387][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.388][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-19 20:00:57.389][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:57.390][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.391][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.393][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:57.393][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:57.393][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:57.393][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:57.393][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:57.394][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:57.395][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.396][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.397][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:57.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.400][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.401][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.402][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.403][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.404][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.406][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.408][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-19 20:00:57.410][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.411][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:57.412][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.414][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:57.415][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.417][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.418][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.420][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.421][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:57.422][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:57.423][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.424][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-19 20:00:57.424][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:57.429][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.437][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:57.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-19 20:00:57.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-19 20:00:57.438][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-19 20:00:57.438][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-19 20:00:57.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:57.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:57.445][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.447][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.449][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.452][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.453][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.455][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-19 20:00:57.457][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.458][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-19 20:00:57.459][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.460][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:57.461][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.462][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.464][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.465][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.466][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-19 20:00:57.467][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:57.467][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.469][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-19 20:00:57.469][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:57.470][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.471][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.472][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.474][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:57.475][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.476][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.477][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:57.478][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.479][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.479][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.481][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.482][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.484][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.485][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.486][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.487][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-19 20:00:57.490][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.491][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-19 20:00:57.492][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.493][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:57.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.497][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.498][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.499][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.500][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-19 20:00:57.501][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:57.502][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.503][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-19 20:00:57.504][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:57.505][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.507][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.508][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-19 20:00:57.509][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.511][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:57.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.515][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.516][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.516][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.518][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.519][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.521][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:57.522][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.523][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[2024-11-19 20:00:57.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.625][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-19 20:00:57.626][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-19 20:00:57.628][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-19 20:00:57.630][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-19 20:00:57.631][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-19 20:00:57.633][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:57.635][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:57.637][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:57.638][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-19 20:00:57.640][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:57.641][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:57.643][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-19 20:00:57.645][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-19 20:00:57.646][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-19 20:00:57.647][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-19 20:00:57.649][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:57.650][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-19 20:00:57.651][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-19 20:00:57.653][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-19 20:00:57.655][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-19 20:00:57.657][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-19 20:00:57.658][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-19 20:00:57.660][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-19 20:00:57.661][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-19 20:00:57.662][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-19 20:00:57.663][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-19 20:00:57.665][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-19 20:00:57.666][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-19 20:00:57.667][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-19 20:00:57.669][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-19 20:00:57.670][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-19 20:00:57.671][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-19 20:00:57.672][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-19 20:00:57.674][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-19 20:00:57.676][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-19 20:00:57.677][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-19 20:00:57.684][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-19 20:00:57.686][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-19 20:00:57.688][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-19 20:00:57.690][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-19 20:00:57.691][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-19 20:00:57.693][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-19 20:00:57.694][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-19 20:00:57.696][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-19 20:00:57.697][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-19 20:00:57.698][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-19 20:00:57.699][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-19 20:00:57.700][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-19 20:00:57.702][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-19 20:00:57.705][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-19 20:00:57.707][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-19 20:00:57.709][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-19 20:00:57.710][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-19 20:00:57.711][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-19 20:00:57.713][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-19 20:00:57.714][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-19 20:00:57.716][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-19 20:00:57.717][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-19 20:00:57.718][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-19 20:00:57.719][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-19 20:00:57.721][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-19 20:00:57.722][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-19 20:00:57.723][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-19 20:00:57.725][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-19 20:00:57.726][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-19 20:00:57.727][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-19 20:00:57.728][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-19 20:00:57.730][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-19 20:00:57.731][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-19 20:00:57.732][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-19 20:00:57.733][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-19 20:00:57.735][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-19 20:00:57.737][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-19 20:00:57.738][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-19 20:00:57.739][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-19 20:00:57.740][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-19 20:00:57.741][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-19 20:00:57.743][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-19 20:00:57.744][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-19 20:00:57.745][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-19 20:00:57.747][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-19 20:00:57.748][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-19 20:00:57.750][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-19 20:00:57.756][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-19 20:00:57.760][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-19 20:00:57.761][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-19 20:00:57.762][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.764][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.772][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[2024-11-19 20:00:57.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.778][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[2024-11-19 20:00:57.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.785][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[2024-11-19 20:00:57.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.835][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[2024-11-19 20:00:57.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-19 20:00:57.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:57.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:57.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:57.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:57.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:57.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:57.888][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-19 20:00:57.890][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:57.892][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.893][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.895][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.896][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-19 20:00:57.897][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.899][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-19 20:00:57.900][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.901][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.902][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-19 20:00:57.903][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-19 20:00:57.904][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.905][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-19 20:00:57.906][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-19 20:00:57.907][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-19 20:00:57.909][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-19 20:00:57.910][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-19 20:00:57.910][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-19 20:00:57.910][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-19 20:00:57.918][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-19 20:00:57.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-19 20:00:57.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-19 20:00:57.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-19 20:00:57.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-19 20:00:57.926][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:57.926][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-19 20:00:57.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.929][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-19 20:00:57.930][self$setPropertyValue]
biodb.DEBUG[2024-11-19 20:00:57.932][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-19 20:00:57.933][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-19 20:00:57.935][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-19 20:00:57.936][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-19 20:00:57.938][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-19 20:00:57.942][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:57.942][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-19 20:00:57.943][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:57.945][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:57.946][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:57.947][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:57.949][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-19 20:00:57.950][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-19 20:00:57.951][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-19 20:00:57.951][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-19 20:00:57.953][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-19 20:00:57.954][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-19 20:00:57.955][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-19 20:00:57.956][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-19 20:00:57.957][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-19 20:00:57.959][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:57.960][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:57.961][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:57.964][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-19 20:00:57.965][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-19 20:00:57.966][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-19 20:00:57.968][biodb::testThat]
biodb.INFO [2024-11-19 20:00:57.969][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-11-19 20:00:57.970][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-19 20:00:57.971][biodb::testThat]
biodb.DEBUG[2024-11-19 20:00:57.973][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-19 20:00:57.974][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-19 20:00:57.975][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-19 20:00:57.978][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:57.980][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:57.981][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:57.982][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:57.983][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:57.984][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:57.985][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:57.986][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:57.987][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:57.988][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:57.989][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-11-19 20:00:57.991][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-19 20:00:57.992][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:57.994][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:57.996][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:57.998][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-19 20:00:58.000][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-19 20:00:58.007][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-19 20:00:58.008][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:58.010][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:58.011][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:58.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:58.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:58.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:58.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:58.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:58.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:58.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:58.029][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.032][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.037][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.038][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.041][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.049][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.053][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.054][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.056][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.057][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.061][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.062][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.064][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.066][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.073][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.079][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.080][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.094][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.100][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.101][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.103][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.104][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.108][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.109][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.114][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.118][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.120][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.121][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.123][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.128][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.129][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.131][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.141][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.149][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.156][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.168][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.175][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.177][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.180][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.186][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.187][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.191][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:58.192][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.195][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:58.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.225][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.230][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.265][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.282][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.309][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.313][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.317][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.321][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.364][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.369][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.395][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.416][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.421][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.425][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.430][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.434][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.440][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.453][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.459][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:58.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.479][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:58.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.522][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.527][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:58.576][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-19 20:00:58.577][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.597][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.603][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:58.609][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:58.610][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:58.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:58.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:58.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:58.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:58.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:58.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:58.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:58.626][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-19 20:00:58.627][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-19 20:00:58.629][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:58.630][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-19 20:00:58.632][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-19 20:00:58.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-19 20:00:58.636][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-19 20:00:58.637][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-19 20:00:58.638][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-19 20:00:58.640][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-19 20:00:58.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:58.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:58.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:58.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:58.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:58.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:58.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:58.660][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.662][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.671][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.673][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.676][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:58.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.680][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.682][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.690][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.691][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.694][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.695][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.722][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.723][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.737][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:58.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.744][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.745][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.750][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:58.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.754][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.755][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.757][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.758][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.762][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.763][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.765][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.771][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.791][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.792][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:58.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:58.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.811][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:58.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:58.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.822][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.823][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.826][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.833][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.834][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:58.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:58.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.847][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:58.848][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.853][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-19 20:00:58.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:58.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:58.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.871][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.876][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-19 20:00:58.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.885][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.889][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.894][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-19 20:00:58.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-19 20:00:58.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-19 20:00:58.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-19 20:00:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-19 20:00:58.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.958][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-19 20:00:58.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.969][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.974][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:58.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.985][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-19 20:00:58.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-19 20:00:58.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:58.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:58.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:58.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-19 20:00:59.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-19 20:00:59.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.025][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-19 20:00:59.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-19 20:00:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.049][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.053][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.057][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-19 20:00:59.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.060][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.064][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.074][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-19 20:00:59.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:59.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:59.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:59.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:59.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.087][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-19 20:00:59.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-19 20:00:59.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.091][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:59.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.110][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-19 20:00:59.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-19 20:00:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-19 20:00:59.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-19 20:00:59.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.167][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.171][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.177][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-19 20:00:59.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-19 20:00:59.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-19 20:00:59.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.219][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-19 20:00:59.220][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.237][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.240][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:59.241][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:59.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:59.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:59.267][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-19 20:00:59.268][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-19 20:00:59.269][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-19 20:00:59.270][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.271][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.273][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:59.274][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.275][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:59.276][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:59.277][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:59.278][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:59.278][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:59.279][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:59.280][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:59.282][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.285][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.298][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.302][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.310][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:59.310][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:59.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:59.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.327][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.331][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.357][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-19 20:00:59.358][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:59.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:59.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-19 20:00:59.373][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-19 20:00:59.374][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-19 20:00:59.375][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-19 20:00:59.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.379][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.381][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-19 20:00:59.383][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-19 20:00:59.384][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-19 20:00:59.386][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-19 20:00:59.387][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-19 20:00:59.389][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-19 20:00:59.390][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-19 20:00:59.391][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-19 20:00:59.393][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-19 20:00:59.395][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.400][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.406][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.411][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.415][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.423][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.427][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-19 20:00:59.428][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-11-19 20:00:59.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:59.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-19 20:00:59.440][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.445][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.450][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.455][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.459][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.463][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-19 20:00:59.474][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-19 20:00:59.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-19 20:00:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-19 20:00:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-19 20:00:59.479][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-19 20:00:59.480][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-19 20:00:59.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-19 20:00:59.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-19 20:00:59.502][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-19 20:00:59.504][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-19 20:00:59.506][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-19 20:00:59.507][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-19 20:00:59.508][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-19 20:00:59.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-19 20:00:59.510][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-19 20:00:59.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-19 20:00:59.512][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-19 20:00:59.513][FUN] Functions in observer 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 
  9.432   0.839  30.078

CHECK results for biodbHmdb on lconway

Summary

Command output

Installation output

Tests output

Example timings