Back to Multiple platform build/check report for BioC 3.19:   simplified   long
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This page was generated on 2024-09-03 17:37 -0400 (Tue, 03 Sep 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4758
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4495
kjohnson1macOS 13.6.6 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4473
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

Package 202/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.10.1  (landing page)
Pierrick Roger
Snapshot Date: 2024-09-01 14:00 -0400 (Sun, 01 Sep 2024)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_19
git_last_commit: 49eb501
git_last_commit_date: 2024-08-05 04:27:43 -0400 (Mon, 05 Aug 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    ERROR    OK  

CHECK results for biodbHmdb on kjohnson1

To the developers/maintainers of the biodbHmdb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbHmdb
Version: 1.10.1
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_1.10.1.tar.gz
StartedAt: 2024-09-02 13:03:49 -0400 (Mon, 02 Sep 2024)
EndedAt: 2024-09-02 13:08:42 -0400 (Mon, 02 Sep 2024)
EllapsedTime: 293.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbHmdb.Rcheck
Warnings: NA

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_1.10.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* 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 ... ERROR
Running examples in ‘biodbHmdb-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: hmdbToSqlite
> ### Title: Convert HMDB Metabolites to a SQLite database.
> ### Aliases: hmdbToSqlite
> 
> ### ** Examples
> 
> # Copy all HMDB entries into a new SQLite database:
> biodbHmdb::hmdbToSqlite('myfile.sqlite')
INFO  [13:04:42.842] Loading definitions from package biodb version 1.12.0.
INFO  [13:04:43.033] Loading definitions from package biodbChebi version 1.10.0.
INFO  [13:04:43.047] Loading definitions from package biodbExpasy version 1.8.1.
INFO  [13:04:43.057] Loading definitions from package biodbHmdb version 1.10.1.
INFO  [13:04:43.069] Loading definitions from package biodbKegg version 1.10.2.
INFO  [13:04:43.126] Loading definitions from package biodbLipidmaps version 1.10.0.
INFO  [13:04:43.136] Loading definitions from package biodbNcbi version 1.8.0.
INFO  [13:04:43.169] Loading definitions from package biodbNci version 1.8.0.
INFO  [13:04:43.181] Loading definitions from package biodbUniprot version 1.10.0.
Loading required package: biodb
INFO  [13:04:43.302] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
INFO  [13:04:43.305] Downloading whole database of hmdb.metabolites.
INFO  [13:04:43.306] Downloading HMDB metabolite database at "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip" ...
trying URL 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip'
Content type 'application/zip' length 953913010 bytes (909.7 MB)
==============================
downloaded 553.2 MB

Warning in utils::download.file(url = url, destfile = dest.file, mode = "wb",  :
  downloaded length 580083712 != reported length 953913010
Warning in utils::download.file(url = url, destfile = dest.file, mode = "wb",  :
  URL 'https://hmdb.ca/system/downloads/current/hmdb_metabolites.zip': status was 'Transferred a partial file'
Error in utils::download.file(url = url, destfile = dest.file, mode = "wb",  : 
  download from 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip' failed
Calls: <Anonymous> ... <Anonymous> -> <Anonymous> -> <Anonymous> -> <Anonymous>
Execution halted
* 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 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-09-02 13:08:18.677][biodb::testContext]
biodb.INFO [2024-09-02 13:08:18.682][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:18.683][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-09-02 13:08:18.684][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:18.685][biodb::testContext]
biodb.INFO [2024-09-02 13:08:18.688][biodb::testThat]
biodb.INFO [2024-09-02 13:08:18.689][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-09-02 13:08:18.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:18.692][biodb::testThat]
biodb.INFO [2024-09-02 13:08:18.823][biodb::testContext]
biodb.INFO [2024-09-02 13:08:18.824][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:18.825][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-09-02 13:08:18.826][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:18.827][biodb::testContext]
biodb.INFO [2024-09-02 13:08:18.839][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:18.841][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:18.851][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:18.852][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-02 13:08:18.854][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.857][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-02 13:08:18.887][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.890][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-02 13:08:18.892][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.895][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-02 13:08:18.896][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-02 13:08:18.896][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-02 13:08:18.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.899][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-02 13:08:18.900][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-02 13:08:18.901][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-02 13:08:18.906][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-02 13:08:18.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.909][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[2024-09-02 13:08:18.910][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-02 13:08:18.911][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-02 13:08:18.912][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-02 13:08:18.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.915][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-02 13:08:18.916][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.918][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[2024-09-02 13:08:18.919][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-02 13:08:18.920][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-02 13:08:18.921][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-02 13:08:18.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.924][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:18.925][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-02 13:08:18.926][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-02 13:08:18.927][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-02 13:08:18.928][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-02 13:08:18.930][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-02 13:08:18.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.934][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-02 13:08:18.935][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-02 13:08:18.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.938][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-02 13:08:18.939][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-02 13:08:18.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.942][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-02 13:08:18.943][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-02 13:08:18.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.946][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-02 13:08:18.947][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-02 13:08:18.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.950][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-02 13:08:18.951][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-02 13:08:18.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.954][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:18.955][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-02 13:08:18.975][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-09-02 13:08:18.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.980][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-02 13:08:18.981][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-02 13:08:18.982][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-02 13:08:18.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:18.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:18.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:18.989][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-02 13:08:19.028][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.047][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-02 13:08:19.049][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.050][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:19.051][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.051][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.053][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.055][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.055][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:19.057][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:19.058][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.059][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-02 13:08:19.060][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:19.061][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.062][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.063][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:19.063][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:19.063][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:19.063][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:19.063][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:19.064][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:19.064][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.065][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.066][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:19.067][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.076][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.077][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.079][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.080][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.081][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-02 13:08:19.083][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.084][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:19.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.085][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:19.086][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.088][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.090][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:19.091][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:19.092][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.094][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-02 13:08:19.095][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:19.096][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.097][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.098][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:19.098][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:19.098][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:19.098][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:19.098][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:19.099][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:19.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.101][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.102][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:19.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.103][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.104][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.105][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.106][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.107][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.107][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.108][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.109][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-02 13:08:19.111][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.112][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-02 13:08:19.113][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.114][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:19.114][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.115][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.116][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.117][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.118][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:19.118][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:19.119][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.120][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-02 13:08:19.121][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:19.121][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.122][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.123][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.124][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:19.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.127][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.128][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:19.129][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.130][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.130][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.131][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.132][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.133][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.134][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.135][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.137][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-02 13:08:19.139][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.141][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:19.142][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.143][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:19.144][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.144][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.145][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.146][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.147][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:19.148][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:19.149][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.149][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-02 13:08:19.150][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:19.151][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.152][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.153][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.153][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:19.154][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.155][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.156][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:19.157][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.157][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.158][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.159][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.160][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.161][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.161][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.162][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.168][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:19.169][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.180][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[2024-09-02 13:08:19.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.183][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[2024-09-02 13:08:19.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.187][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[2024-09-02 13:08:19.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.194][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[2024-09-02 13:08:19.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.238][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-02 13:08:19.251][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-02 13:08:19.253][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-02 13:08:19.255][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-02 13:08:19.257][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-02 13:08:19.259][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:19.260][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:19.261][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:19.263][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-02 13:08:19.264][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:19.266][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:19.267][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-02 13:08:19.268][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:19.269][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:19.271][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-02 13:08:19.272][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:19.274][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-02 13:08:19.275][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-02 13:08:19.276][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-02 13:08:19.278][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-02 13:08:19.279][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-02 13:08:19.281][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-02 13:08:19.282][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-02 13:08:19.283][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-02 13:08:19.285][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-02 13:08:19.286][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-02 13:08:19.287][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-02 13:08:19.288][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-02 13:08:19.291][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-02 13:08:19.292][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-02 13:08:19.294][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-02 13:08:19.296][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-02 13:08:19.297][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-02 13:08:19.298][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-02 13:08:19.300][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-02 13:08:19.301][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-02 13:08:19.302][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-02 13:08:19.303][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-02 13:08:19.304][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-02 13:08:19.306][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-02 13:08:19.307][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-02 13:08:19.308][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-02 13:08:19.309][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-02 13:08:19.310][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-02 13:08:19.312][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-02 13:08:19.313][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-02 13:08:19.314][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-02 13:08:19.316][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-02 13:08:19.317][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-02 13:08:19.318][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-02 13:08:19.319][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-02 13:08:19.321][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-02 13:08:19.322][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-02 13:08:19.323][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-02 13:08:19.324][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-02 13:08:19.325][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-02 13:08:19.327][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-02 13:08:19.328][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-02 13:08:19.330][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-02 13:08:19.332][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-02 13:08:19.334][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-02 13:08:19.336][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-02 13:08:19.337][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-02 13:08:19.338][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-02 13:08:19.339][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-02 13:08:19.341][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-02 13:08:19.342][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-02 13:08:19.343][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-02 13:08:19.344][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-02 13:08:19.345][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-02 13:08:19.347][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-02 13:08:19.348][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-02 13:08:19.349][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-02 13:08:19.350][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-02 13:08:19.351][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-02 13:08:19.353][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-02 13:08:19.354][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-02 13:08:19.355][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-02 13:08:19.356][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-02 13:08:19.358][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-02 13:08:19.359][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-02 13:08:19.361][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-02 13:08:19.362][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-02 13:08:19.370][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-02 13:08:19.372][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:19.377][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:19.378][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.379][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.497][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[2024-09-02 13:08:19.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.504][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[2024-09-02 13:08:19.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:19.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:19.532][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:19.544][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:19.546][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.547][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.548][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.549][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:19.550][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.551][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-02 13:08:19.552][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.552][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.553][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-02 13:08:19.554][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:19.555][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.556][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-02 13:08:19.557][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-02 13:08:19.559][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:19.559][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:19.559][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-02 13:08:19.559][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-02 13:08:19.560][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-02 13:08:19.561][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.563][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:19.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:19.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:19.565][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:19.566][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:19.566][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-02 13:08:19.567][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.567][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.568][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:19.569][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:19.575][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-02 13:08:19.578][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:19.581][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:19.582][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:19.583][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:19.616][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:19.617][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-02 13:08:19.623][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:19.629][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:19.635][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:19.636][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:19.637][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-02 13:08:19.638][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-02 13:08:19.639][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:19.639][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-02 13:08:19.640][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:19.641][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:19.642][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-02 13:08:19.642][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-02 13:08:19.645][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:19.674][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:19.676][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:19.677][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:19.678][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:19.679][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:19.680][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-02 13:08:19.693][biodb::testThat]
biodb.INFO [2024-09-02 13:08:19.694][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-09-02 13:08:19.695][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:19.696][biodb::testThat]
biodb.TRACE[2024-09-02 13:08:19.702][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-09-02 13:08:19.705][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:19.710][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:19.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:19.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:19.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:19.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:19.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:19.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:19.735][FUN] Functions in observer BiodbConfig: [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[2024-09-02 13:08:19.754][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:19.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:19.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.758][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:19.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:19.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.777][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:19.780][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:19.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.783][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:19.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:19.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.816][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:19.817][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:19.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.818][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.820][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:19.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:19.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.823][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:19.824][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:19.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.826][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:19.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:19.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:19.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:19.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.838][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:19.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:19.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.843][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:19.844][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:19.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.846][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:19.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:19.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.851][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:19.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:19.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.853][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:19.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:19.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.860][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:19.862][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:19.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.874][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.875][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:19.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:19.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.880][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:19.883][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:19.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.885][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.886][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:19.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:19.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.890][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:19.892][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:19.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.894][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:19.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:19.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.900][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:19.901][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:19.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.903][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:19.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:19.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.908][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:19.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:19.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.910][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:19.919][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:19.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.921][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:19.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:19.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.926][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:19.927][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:19.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.928][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:19.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:19.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.934][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:19.936][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:19.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.938][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.944][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:19.944][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:19.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.946][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:19.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:19.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.955][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:19.957][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:19.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.958][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:19.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:19.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.963][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:19.964][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:19.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.966][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:19.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:19.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:19.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:19.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:19.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.024][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.041][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.044][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.048][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.051][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.055][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:20.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.085][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.096][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.100][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.116][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.119][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.130][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.134][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.137][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.144][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:20.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:20.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:20.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:20.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:20.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.174][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.217][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.223][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.227][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.231][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.235][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.257][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:20.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.270][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:20.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:20.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.321][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.325][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.332][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:20.372][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-02 13:08:20.375][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:20.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:20.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.379][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:20.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:20.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.383][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:20.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:20.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.386][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:20.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:20.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.424][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.467][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.470][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.473][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:20.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.498][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.504][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:20.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:20.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.518][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.522][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.526][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.529][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.541][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.543][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.545][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:20.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.573][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.574][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.576][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:20.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.592][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.597][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.600][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.604][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.605][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.606][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.607][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:20.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.638][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:20.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.654][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.658][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.661][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.667][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.668][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.670][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:20.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.710][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.713][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:20.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:20.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.746][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.750][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.751][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.753][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.753][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:20.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:20.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.780][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.782][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:20.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:20.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.797][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.802][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.805][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.809][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.809][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.811][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.839][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.841][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:20.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.871][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.874][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.875][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.877][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:20.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.900][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.912][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.914][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.917][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.918][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:20.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.948][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.949][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.950][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:20.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.976][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.977][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.982][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:20.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:20.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:20.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:20.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:20.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.013][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.049][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.052][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.066][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.078][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.082][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.085][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.086][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.088][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.088][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.103][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.104][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.106][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.111][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.113][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.114][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.120][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.121][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.124][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.134][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.140][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.141][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.142][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.149][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.151][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.153][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.159][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.160][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.162][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.167][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.169][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.171][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.178][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.180][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.182][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.188][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.191][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.197][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.199][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.207][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.208][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.210][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.215][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.216][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.218][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.224][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.227][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.234][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.237][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.242][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.243][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.245][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.261][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.263][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.265][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.273][ef$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:21.284][biodb::testThat]
biodb.INFO [2024-09-02 13:08:21.285][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-09-02 13:08:21.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:21.287][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:21.301][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-09-02 13:08:21.311][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:21.320][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-09-02 13:08:21.321][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-09-02 13:08:21.322][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-09-02 13:08:21.324][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-09-02 13:08:21.325][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-02 13:08:21.328][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-02 13:08:21.330][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-02 13:08:21.331][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-09-02 13:08:21.333][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker5766f3959c7marker".
biodb.TRACE[2024-09-02 13:08:21.334][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-09-02 13:08:21.335][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-02 13:08:21.336][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-09-02 13:08:21.337][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-09-02 13:08:21.338][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2024-09-02 13:08:21.339][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-02 13:08:21.340][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2024-09-02 13:08:21.346][private$findXmlDatabaseFile] Found files [2]: "hmdb.metabolites1730c337d2958zip, hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-09-02 13:08:21.348][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-09-02 13:08:21.349][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-09-02 13:08:21.350][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2024-09-02 13:08:21.362][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-09-02 13:08:21.364][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-02 13:08:21.365][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-02 13:08:21.366][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-09-02 13:08:21.369][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker5761e3550ddmarker".
biodb.TRACE[2024-09-02 13:08:21.372][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-09-02 13:08:21.373][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-09-02 13:08:21.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-09-02 13:08:21.377][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-02 13:08:21.379][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-09-02 13:08:21.380][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:21.407][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:21.408][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:21.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:21.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:21.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:21.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:21.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:21.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:21.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-02 13:08:21.425][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.428][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.433][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.434][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.435][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.437][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.448][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.450][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.452][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.453][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.457][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.458][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.459][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.461][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.465][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.467][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.474][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.475][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.477][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.482][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.483][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.484][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.486][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.489][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.490][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.491][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.493][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.496][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.497][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.499][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.500][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.505][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.506][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.509][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.510][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.514][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.514][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.516][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.520][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.521][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.523][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.528][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.529][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.531][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.539][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.541][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.546][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.549][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.555][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.556][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.558][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.565][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.570][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:21.571][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.572][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.574][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:21.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.599][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.602][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.612][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.616][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:21.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:21.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:21.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:21.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.660][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.663][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.674][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.677][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.683][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:21.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:21.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:21.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:21.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:21.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:21.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.737][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:21.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:21.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.763][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.768][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.772][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:21.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.776][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.782][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.786][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.793][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:21.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.813][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:21.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:21.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.835][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.839][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:21.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:21.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:21.880][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-02 13:08:21.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-09-02 13:08:21.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-09-02 13:08:21.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-09-02 13:08:21.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-09-02 13:08:21.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-09-02 13:08:21.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-09-02 13:08:21.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:21.905][biodb::testThat]
biodb.INFO [2024-09-02 13:08:21.906][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-09-02 13:08:21.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:21.908][biodb::testThat]
biodb.TRACE[2024-09-02 13:08:21.911][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.912][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.914][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:21.915][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-09-02 13:08:21.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:21.959][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-09-02 13:08:21.960][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-09-02 13:08:21.961][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-02 13:08:21.962][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-02 13:08:21.964][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:21.965][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:21.966][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:21.968][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:21.968][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:21.970][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:21.971][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:21.972][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:21.973][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:21.973][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:21.974][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:21.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:21.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:21.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:21.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:21.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:21.994][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:21.995][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:21.996][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-09-02 13:08:22.015][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.017][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.018][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.020][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-09-02 13:08:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.047][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[2024-09-02 13:08:22.102][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-02 13:08:22.103][private$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[2024-09-02 13:08:22.104][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-09-02 13:08:22.118][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.120][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.122][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:22.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.124][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:22.147][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:22.148][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:22.149][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:22.150][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:22.151][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:22.152][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:22.155][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.170][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:22.172][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:22.173][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-09-02 13:08:22.186][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.188][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.190][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.191][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-09-02 13:08:22.204][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.209][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.213][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.220][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-09-02 13:08:22.221][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-09-02 13:08:22.222][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-09-02 13:08:22.223][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-09-02 13:08:22.225][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.226][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.227][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:22.228][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.229][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:22.230][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:22.231][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:22.232][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:22.233][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:22.234][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:22.235][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:22.237][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.240][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.243][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:22.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.253][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:22.254][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:22.255][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-09-02 13:08:22.271][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.272][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-09-02 13:08:22.273][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:22.274][biodb::testThat]
biodb.TRACE[2024-09-02 13:08:22.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.318][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-09-02 13:08:22.320][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-02 13:08:22.321][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-02 13:08:22.323][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.324][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.325][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:22.327][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:22.328][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:22.329][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:22.330][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:22.331][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:22.332][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:22.333][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:22.334][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:22.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:22.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:22.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:22.354][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:22.355][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-09-02 13:08:22.372][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.373][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-09-02 13:08:22.374][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:22.375][biodb::testThat]
biodb.TRACE[2024-09-02 13:08:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.407][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:22.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:22.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:22.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.467][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.472][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-02 13:08:22.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:22.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-02 13:08:22.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:22.479][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:22.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-02 13:08:22.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:22.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:22.490][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.491][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-09-02 13:08:22.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:22.493][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.502][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.503][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-09-02 13:08:22.504][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:22.505][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.516][biodb::testThat]
biodb.INFO [2024-09-02 13:08:22.517][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-09-02 13:08:22.518][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:22.519][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:22.524][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-09-02 13:08:25.759][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-09-02 13:08:26.194][biodb::testThat]
biodb.INFO [2024-09-02 13:08:26.196][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-09-02 13:08:26.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:26.197][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:28.069][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-09-02 13:08:28.511][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:28.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:28.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.515][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.516][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:28.517][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:28.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.518][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.519][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:28.520][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:28.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.522][ef$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:28.524][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.525][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-09-02 13:08:28.525][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:28.526][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:28.528][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-09-02 13:08:28.589][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:28.591][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.593][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-02 13:08:28.608][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-09-02 13:08:28.609][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-09-02 13:08:28.610][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-09-02 13:08:28.611][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:28.613][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.614][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:28.615][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:28.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:28.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:28.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:28.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:28.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:28.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.626][FUN] Functions in observer BiodbConfig: [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[2024-09-02 13:08:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.632][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:28.697][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-09-02 13:08:28.700][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-09-02 13:08:28.721][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.722][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-09-02 13:08:28.723][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:28.724][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:28.734][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-09-02 13:08:28.735][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-09-02 13:08:28.736][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:28.738][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.740][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-02 13:08:28.742][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-09-02 13:08:28.743][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-09-02 13:08:28.744][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-09-02 13:08:28.745][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:28.746][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.748][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:28.749][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:28.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:28.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:28.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:28.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:28.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:28.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-02 13:08:28.762][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.766][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:28.791][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-09-02 13:08:28.792][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-09-02 13:08:28.793][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-09-02 13:08:28.808][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.816][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-09-02 13:08:28.817][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:28.819][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.843][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.845][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-09-02 13:08:28.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:28.847][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:28.849][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.851][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.852][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:28.854][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.855][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:28.856][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:28.857][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:28.858][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:28.859][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-09-02 13:08:28.868][biodb::testThat]
biodb.INFO [2024-09-02 13:08:28.870][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-09-02 13:08:28.870][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:28.871][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:28.874][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.875][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.876][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:28.878][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:28.879][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:28.880][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:28.881][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:28.882][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:28.883][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-09-02 13:08:28.892][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:28.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:28.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.896][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.896][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:28.897][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:28.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.899][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:28.900][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:28.901][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:28.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:28.902][ef$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:28.903][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-02 13:08:28.904][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-02 13:08:28.913][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-02 13:08:28.914][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-02 13:08:28.915][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:28.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:28.917][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:28.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:28.918][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.919][FUN] Functions in observer BiodbConfig: [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 [2024-09-02 13:08:28.923][biodb::testContext]
biodb.INFO [2024-09-02 13:08:28.925][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:28.926][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-09-02 13:08:28.927][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:28.928][biodb::testContext]
biodb.INFO [2024-09-02 13:08:28.933][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:28.935][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:28.948][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:28.950][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-02 13:08:28.951][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.954][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-02 13:08:28.955][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.957][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[2024-09-02 13:08:28.958][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-02 13:08:28.959][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.962][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-02 13:08:28.963][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-02 13:08:28.964][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-02 13:08:28.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.967][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-02 13:08:28.968][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-02 13:08:28.969][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.972][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-02 13:08:28.973][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-02 13:08:28.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.976][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-02 13:08:28.977][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-02 13:08:28.978][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-02 13:08:28.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.981][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-02 13:08:28.982][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.985][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-02 13:08:28.986][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-02 13:08:28.987][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-02 13:08:28.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.990][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:28.991][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-02 13:08:28.992][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-02 13:08:28.992][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-02 13:08:28.993][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-02 13:08:28.994][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-02 13:08:28.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:28.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:28.997][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-02 13:08:28.998][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-02 13:08:28.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:28.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.001][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-02 13:08:29.002][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-02 13:08:29.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.005][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-02 13:08:29.006][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-02 13:08:29.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.009][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-02 13:08:29.010][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-02 13:08:29.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.013][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-02 13:08:29.014][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-02 13:08:29.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.018][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:29.019][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-02 13:08:29.038][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-09-02 13:08:29.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.043][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-02 13:08:29.044][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-02 13:08:29.045][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-02 13:08:29.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.049][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-02 13:08:29.051][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.077][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-02 13:08:29.078][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.079][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:29.080][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.081][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.082][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.084][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.085][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:29.086][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:29.087][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.088][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-02 13:08:29.089][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:29.089][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.090][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.091][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:29.091][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:29.091][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:29.091][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:29.091][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:29.092][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:29.093][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.094][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.094][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:29.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.097][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.098][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.098][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.099][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.100][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.101][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.102][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-02 13:08:29.104][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.105][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:29.106][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.107][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:29.107][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.108][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.109][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.110][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.111][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:29.112][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:29.112][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.113][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-02 13:08:29.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:29.115][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.116][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.117][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:29.117][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:29.117][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:29.117][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:29.117][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:29.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:29.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:29.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.124][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.126][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.127][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.128][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-02 13:08:29.130][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.131][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-02 13:08:29.132][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.133][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:29.134][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.134][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.135][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.136][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.137][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:29.138][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:29.139][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.139][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-02 13:08:29.140][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:29.141][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.142][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.143][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.144][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:29.144][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.145][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.146][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:29.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.148][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.149][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.150][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.151][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.151][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.152][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.153][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-02 13:08:29.155][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.156][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:29.157][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.158][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:29.159][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.160][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.160][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.161][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.162][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:29.163][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:29.171][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.172][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-02 13:08:29.174][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:29.175][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.176][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.177][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.178][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:29.179][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.180][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:29.181][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.182][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.183][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.184][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.184][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.185][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.186][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.187][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.188][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:29.189][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.204][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[2024-09-02 13:08:29.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.208][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[2024-09-02 13:08:29.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.245][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[2024-09-02 13:08:29.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.253][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-02 13:08:29.254][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-02 13:08:29.255][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-02 13:08:29.257][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-02 13:08:29.258][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-02 13:08:29.259][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:29.267][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:29.269][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:29.271][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-02 13:08:29.272][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:29.273][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:29.274][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-02 13:08:29.275][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:29.277][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:29.278][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-02 13:08:29.279][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:29.280][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-02 13:08:29.281][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-02 13:08:29.283][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-02 13:08:29.284][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-02 13:08:29.285][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-02 13:08:29.286][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-02 13:08:29.287][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-02 13:08:29.289][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-02 13:08:29.290][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-02 13:08:29.291][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-02 13:08:29.292][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-02 13:08:29.293][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-02 13:08:29.295][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-02 13:08:29.296][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-02 13:08:29.297][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-02 13:08:29.298][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-02 13:08:29.299][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-02 13:08:29.301][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-02 13:08:29.302][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-02 13:08:29.303][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-02 13:08:29.304][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-02 13:08:29.305][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-02 13:08:29.307][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-02 13:08:29.308][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-02 13:08:29.309][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-02 13:08:29.310][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-02 13:08:29.311][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-02 13:08:29.313][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-02 13:08:29.314][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-02 13:08:29.316][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-02 13:08:29.317][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-02 13:08:29.318][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-02 13:08:29.319][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-02 13:08:29.320][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-02 13:08:29.322][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-02 13:08:29.323][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-02 13:08:29.324][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-02 13:08:29.325][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-02 13:08:29.326][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-02 13:08:29.328][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-02 13:08:29.329][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-02 13:08:29.330][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-02 13:08:29.331][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-02 13:08:29.332][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-02 13:08:29.334][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-02 13:08:29.335][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-02 13:08:29.336][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-02 13:08:29.337][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-02 13:08:29.338][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-02 13:08:29.339][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-02 13:08:29.341][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-02 13:08:29.342][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-02 13:08:29.343][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-02 13:08:29.344][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-02 13:08:29.345][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-02 13:08:29.346][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-02 13:08:29.347][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-02 13:08:29.349][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-02 13:08:29.350][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-02 13:08:29.351][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-02 13:08:29.352][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-02 13:08:29.354][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-02 13:08:29.355][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-02 13:08:29.363][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-02 13:08:29.365][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-02 13:08:29.367][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-02 13:08:29.368][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-02 13:08:29.369][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-02 13:08:29.371][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:29.372][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:29.373][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.374][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.385][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[2024-09-02 13:08:29.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:29.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:29.469][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:29.471][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:29.473][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.473][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.474][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:29.476][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.477][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-02 13:08:29.478][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.478][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.479][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-02 13:08:29.480][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:29.481][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.482][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-02 13:08:29.483][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-02 13:08:29.484][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:29.485][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:29.485][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-02 13:08:29.485][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-02 13:08:29.486][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-02 13:08:29.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:29.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:29.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:29.491][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:29.491][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:29.491][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-02 13:08:29.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.494][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:29.494][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:29.495][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-02 13:08:29.497][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:29.498][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:29.500][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:29.501][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:29.504][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:29.505][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-02 13:08:29.506][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:29.507][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:29.508][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:29.509][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:29.510][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-02 13:08:29.511][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-02 13:08:29.512][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:29.512][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-02 13:08:29.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:29.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:29.514][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-02 13:08:29.515][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-02 13:08:29.516][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:29.517][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:29.518][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:29.519][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:29.520][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:29.521][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:29.522][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-02 13:08:29.523][biodb::testThat]
biodb.INFO [2024-09-02 13:08:29.524][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-09-02 13:08:29.525][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:29.526][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:29.530][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:29.531][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:29.532][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:29.534][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:29.534][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:29.536][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:29.537][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:29.537][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:29.538][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:29.541][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-09-02 13:08:29.547][biodb::testThat]
biodb.INFO [2024-09-02 13:08:29.548][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-09-02 13:08:29.549][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:29.556][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:29.559][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-09-02 13:08:29.560][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:29.562][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:29.563][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-02 13:08:29.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-09-02 13:08:29.566][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-02 13:08:29.568][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-02 13:08:29.569][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:29.570][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:29.571][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:29.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:29.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:29.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:29.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:29.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:29.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:29.583][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.TRACE[2024-09-02 13:08:29.587][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:29.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:29.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.590][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:29.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.610][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.611][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.613][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.614][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.618][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.619][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.620][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.622][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.625][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.626][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.628][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.635][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.639][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.640][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.643][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.649][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.650][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.652][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.653][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.657][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.658][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.659][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.660][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.671][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.673][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.675][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.676][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.681][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.683][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.685][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.686][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.690][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:29.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:29.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.692][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:29.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:29.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.697][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:29.698][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:29.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.700][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:29.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:29.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.704][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.706][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.713][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.719][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:29.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:29.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.723][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:29.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:29.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.728][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:29.729][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:29.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.731][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:29.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:29.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.736][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:29.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:29.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.738][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:29.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.743][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:29.744][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.746][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.747][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:29.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:29.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:29.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:29.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:29.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.764][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.768][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:29.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.780][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.784][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.787][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:29.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:29.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:29.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.813][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:29.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.823][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.828][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:29.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.836][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.843][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:29.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:29.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:29.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.851][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:29.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:29.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:29.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:29.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:29.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.869][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:29.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:29.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:29.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:29.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:29.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:29.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:29.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.900][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.909][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:29.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:29.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:29.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:29.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:29.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:29.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:29.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:29.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.933][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.936][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:29.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.944][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.949][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.952][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:29.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.956][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:29.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:29.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:29.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:29.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:29.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:29.994][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:29.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:29.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:29.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:30.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:30.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:30.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:30.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:30.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.018][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.026][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.037][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:30.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:30.070][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-09-02 13:08:30.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-02 13:08:30.093][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-02 13:08:30.095][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-02 13:08:30.096][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-02 13:08:30.097][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-02 13:08:30.097][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.099][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.100][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-09-02 13:08:30.107][biodb::testContext]
biodb.INFO [2024-09-02 13:08:30.109][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:30.110][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-09-02 13:08:30.110][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-02 13:08:30.111][biodb::testContext]
biodb.INFO [2024-09-02 13:08:30.117][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:30.119][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:30.135][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:30.137][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-02 13:08:30.138][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.141][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-02 13:08:30.142][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.146][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-02 13:08:30.146][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.150][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-02 13:08:30.150][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-02 13:08:30.151][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-02 13:08:30.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.156][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-02 13:08:30.158][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-02 13:08:30.159][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.162][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-02 13:08:30.163][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-02 13:08:30.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.167][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-02 13:08:30.167][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-02 13:08:30.169][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-02 13:08:30.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.172][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-02 13:08:30.173][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.177][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-02 13:08:30.179][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-02 13:08:30.180][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-02 13:08:30.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.183][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[2024-09-02 13:08:30.184][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:30.184][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-02 13:08:30.185][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-02 13:08:30.186][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-02 13:08:30.187][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-02 13:08:30.188][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-02 13:08:30.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.191][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-02 13:08:30.192][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-02 13:08:30.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.194][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[2024-09-02 13:08:30.195][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-02 13:08:30.197][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-02 13:08:30.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.200][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-02 13:08:30.201][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-02 13:08:30.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.204][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-02 13:08:30.205][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-02 13:08:30.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.208][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-02 13:08:30.209][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-02 13:08:30.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.213][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-02 13:08:30.214][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-02 13:08:30.235][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-09-02 13:08:30.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.241][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-02 13:08:30.242][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-02 13:08:30.243][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-02 13:08:30.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.249][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-02 13:08:30.252][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.279][self$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[2024-09-02 13:08:30.281][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:30.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.284][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.285][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.286][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.287][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:30.289][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:30.291][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.292][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-02 13:08:30.293][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:30.294][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.295][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.297][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:30.297][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:30.297][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:30.297][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:30.297][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:30.298][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:30.299][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.300][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.301][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:30.302][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.303][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.303][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.304][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.305][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.306][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.307][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.308][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.309][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-02 13:08:30.311][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.312][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:30.313][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.313][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:30.314][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.317][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.318][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.320][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.321][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:30.322][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:30.323][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.324][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-02 13:08:30.325][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:30.326][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-02 13:08:30.327][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-02 13:08:30.328][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:30.329][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.330][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.331][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:30.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.333][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.333][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.334][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.335][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.336][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.339][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.341][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.342][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-02 13:08:30.344][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.345][self$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[2024-09-02 13:08:30.346][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.347][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:30.348][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.349][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.350][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.352][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-02 13:08:30.352][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:30.353][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.354][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-02 13:08:30.355][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:30.356][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.357][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.359][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.360][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:30.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:30.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.368][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.369][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.371][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.372][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.373][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.375][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.376][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-02 13:08:30.378][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.379][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-02 13:08:30.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.388][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:30.390][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.393][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.394][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.395][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.396][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-02 13:08:30.398][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:30.399][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.400][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-02 13:08:30.401][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:30.402][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.403][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.404][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.405][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-02 13:08:30.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:30.408][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.410][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.411][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.411][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.412][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.413][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.414][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.416][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:30.417][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.453][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[2024-09-02 13:08:30.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.464][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[2024-09-02 13:08:30.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.500][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-02 13:08:30.501][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-02 13:08:30.502][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-02 13:08:30.503][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-02 13:08:30.505][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-02 13:08:30.506][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:30.507][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:30.508][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:30.510][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-02 13:08:30.512][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:30.514][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:30.516][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-02 13:08:30.518][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-02 13:08:30.519][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-02 13:08:30.520][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-02 13:08:30.522][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:30.523][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-02 13:08:30.524][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-02 13:08:30.525][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-02 13:08:30.527][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-02 13:08:30.528][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-02 13:08:30.529][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-02 13:08:30.530][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-02 13:08:30.531][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-02 13:08:30.533][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-02 13:08:30.536][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-02 13:08:30.538][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-02 13:08:30.540][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-02 13:08:30.541][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-02 13:08:30.543][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-02 13:08:30.546][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-02 13:08:30.547][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-02 13:08:30.550][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-02 13:08:30.552][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-02 13:08:30.554][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-02 13:08:30.556][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-02 13:08:30.558][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-02 13:08:30.559][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-02 13:08:30.560][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-02 13:08:30.562][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-02 13:08:30.563][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-02 13:08:30.564][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-02 13:08:30.565][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-02 13:08:30.568][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-02 13:08:30.569][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-02 13:08:30.572][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-02 13:08:30.573][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-02 13:08:30.574][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-02 13:08:30.576][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-02 13:08:30.577][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-02 13:08:30.578][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-02 13:08:30.579][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-02 13:08:30.580][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-02 13:08:30.584][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-02 13:08:30.586][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-02 13:08:30.588][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-02 13:08:30.589][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-02 13:08:30.590][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-02 13:08:30.592][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-02 13:08:30.593][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-02 13:08:30.595][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-02 13:08:30.597][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-02 13:08:30.598][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-02 13:08:30.600][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-02 13:08:30.601][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-02 13:08:30.602][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-02 13:08:30.604][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-02 13:08:30.605][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-02 13:08:30.613][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-02 13:08:30.615][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-02 13:08:30.617][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-02 13:08:30.618][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-02 13:08:30.619][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-02 13:08:30.620][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-02 13:08:30.622][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-02 13:08:30.623][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-02 13:08:30.624][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-02 13:08:30.625][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-02 13:08:30.626][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-02 13:08:30.628][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-02 13:08:30.630][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-02 13:08:30.632][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-02 13:08:30.634][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-02 13:08:30.635][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-02 13:08:30.637][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-09-02 13:08:30.638][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-02 13:08:30.639][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.641][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.672][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[2024-09-02 13:08:30.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.728][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[2024-09-02 13:08:30.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.738][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[2024-09-02 13:08:30.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.744][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[2024-09-02 13:08:30.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-02 13:08:30.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:30.754][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-02 13:08:30.756][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:30.758][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.760][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.762][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.762][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-02 13:08:30.763][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.764][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-02 13:08:30.765][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.765][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.766][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-02 13:08:30.767][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-02 13:08:30.769][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.770][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-02 13:08:30.771][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-02 13:08:30.772][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-02 13:08:30.773][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-02 13:08:30.774][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-02 13:08:30.774][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-02 13:08:30.774][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-02 13:08:30.774][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-02 13:08:30.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.777][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.778][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-02 13:08:30.779][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-02 13:08:30.780][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-02 13:08:30.781][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-02 13:08:30.782][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:30.782][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-02 13:08:30.783][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.784][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.785][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-02 13:08:30.786][self$setPropertyValue]
biodb.DEBUG[2024-09-02 13:08:30.787][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-02 13:08:30.788][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-02 13:08:30.790][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-02 13:08:30.791][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-02 13:08:30.793][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-02 13:08:30.796][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:30.797][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-02 13:08:30.798][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:30.800][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:30.801][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:30.801][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:30.803][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-02 13:08:30.803][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-02 13:08:30.804][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-02 13:08:30.804][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-02 13:08:30.805][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-02 13:08:30.806][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-02 13:08:30.807][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-02 13:08:30.808][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-02 13:08:30.808][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-02 13:08:30.810][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:30.811][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:30.812][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:30.813][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-02 13:08:30.814][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-02 13:08:30.815][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-02 13:08:30.816][biodb::testThat]
biodb.INFO [2024-09-02 13:08:30.817][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-09-02 13:08:30.828][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-02 13:08:30.829][biodb::testThat]
biodb.DEBUG[2024-09-02 13:08:30.844][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-02 13:08:30.845][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-09-02 13:08:30.847][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-09-02 13:08:30.852][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:30.853][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:30.855][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:30.856][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:30.857][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:30.858][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:30.859][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:30.860][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:30.862][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:30.863][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:30.864][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-09-02 13:08:30.866][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-09-02 13:08:30.867][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:30.869][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:30.870][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-02 13:08:30.872][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-09-02 13:08:30.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-02 13:08:30.875][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-09-02 13:08:30.878][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:30.879][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:30.881][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:30.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:30.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:30.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:30.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:30.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:30.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:30.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-02 13:08:30.898][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.901][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:30.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:30.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.906][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:30.907][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.908][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:30.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.916][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:30.917][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:30.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.919][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.920][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:30.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:30.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.924][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:30.924][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:30.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.926][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.927][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:30.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:30.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.936][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:30.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.941][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:30.949][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:30.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.952][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:30.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.957][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:30.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:30.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.960][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.962][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:30.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:30.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.967][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:30.968][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:30.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.970][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.972][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:30.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.976][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:30.977][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:30.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.979][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:30.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:30.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.984][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:30.985][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:30.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.987][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.992][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:30.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:30.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.994][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:30.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:30.999][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.000][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.002][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.009][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.010][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.012][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.017][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.018][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.019][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.025][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.026][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.027][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.032][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.033][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.035][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.036][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.040][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.042][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.044][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.046][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.050][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:31.051][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.053][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.076][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.094][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.098][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.105][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.108][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.112][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.152][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.157][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.165][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.172][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.232][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.262][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.266][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.269][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.273][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.276][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.304][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.307][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:31.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.323][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:31.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.348][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.359][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:31.393][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-02 13:08:31.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.402][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.412][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:31.418][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:31.419][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:31.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:31.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:31.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:31.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:31.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:31.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:31.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:31.434][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-09-02 13:08:31.435][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-02 13:08:31.437][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:31.439][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-02 13:08:31.441][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-09-02 13:08:31.442][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-02 13:08:31.444][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-02 13:08:31.445][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-02 13:08:31.446][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-02 13:08:31.447][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-02 13:08:31.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:31.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:31.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:31.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:31.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:31.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:31.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-02 13:08:31.463][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.465][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.467][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.472][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.473][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.475][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.479][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.480][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.482][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.483][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.488][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.489][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.492][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.493][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.500][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.506][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.507][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.509][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.514][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.516][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.518][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.521][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.523][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.525][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.527][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.539][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.541][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.544][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.553][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.554][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.556][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.557][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.561][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.562][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.563][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.568][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.570][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.576][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.578][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.588][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.595][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.596][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.597][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.602][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.603][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.605][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.608][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.615][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.616][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.619][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:31.620][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.622][ef$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-02 13:08:31.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.645][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-02 13:08:31.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.663][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.668][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-02 13:08:31.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-02 13:08:31.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-02 13:08:31.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.697][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.700][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-02 13:08:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.707][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.710][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.714][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-02 13:08:31.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.721][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-02 13:08:31.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.731][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.740][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.751][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-02 13:08:31.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-02 13:08:31.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-02 13:08:31.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-02 13:08:31.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.791][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.794][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.798][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-02 13:08:31.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-02 13:08:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.826][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.831][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.835][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-02 13:08:31.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.838][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.842][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.846][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-02 13:08:31.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-02 13:08:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-02 13:08:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.864][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:31.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.889][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-02 13:08:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-02 13:08:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-02 13:08:31.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-02 13:08:31.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.915][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.920][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.931][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-02 13:08:31.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-02 13:08:31.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-02 13:08:31.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:31.956][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-09-02 13:08:31.957][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.961][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.964][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:31.967][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:31.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:31.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:31.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:31.971][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:31.971][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:31.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:31.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:31.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:31.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:31.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:31.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:31.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:31.989][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-02 13:08:31.991][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-09-02 13:08:31.992][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-09-02 13:08:31.994][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.004][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.007][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:32.010][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.012][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:32.015][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:32.018][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:32.019][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:32.020][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:32.021][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:32.022][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:32.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.029][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.045][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.048][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:32.052][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:32.053][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:32.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:32.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:32.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:32.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:32.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:32.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:32.068][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.TRACE[2024-09-02 13:08:32.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.075][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.084][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.091][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:32.098][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-09-02 13:08:32.099][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:32.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:32.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:32.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:32.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:32.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:32.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:32.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-02 13:08:32.116][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-02 13:08:32.117][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-09-02 13:08:32.119][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-09-02 13:08:32.121][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.122][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.123][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-02 13:08:32.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-02 13:08:32.126][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-02 13:08:32.137][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-02 13:08:32.139][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-02 13:08:32.140][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-02 13:08:32.142][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-02 13:08:32.143][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-02 13:08:32.144][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-02 13:08:32.146][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.150][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.154][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.157][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.166][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:32.174][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-09-02 13:08:32.175][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-09-02 13:08:32.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:32.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:32.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:32.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:32.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:32.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:32.188][FUN] Functions in observer BiodbConfig: [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[2024-09-02 13:08:32.189][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.196][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-02 13:08:32.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-02 13:08:32.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-02 13:08:32.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-02 13:08:32.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-02 13:08:32.213][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-02 13:08:32.214][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-02 13:08:32.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-02 13:08:32.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:32.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:32.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:32.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:32.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:32.227][FUN] Functions in observer BiodbConfig: [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 [2024-09-02 13:08:32.235][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-02 13:08:32.238][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-02 13:08:32.239][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-02 13:08:32.241][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-02 13:08:32.242][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-02 13:08:32.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-02 13:08:32.244][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-02 13:08:32.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-02 13:08:32.246][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-02 13:08:32.247][FUN] Functions in observer 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 
  9.686   0.642  16.346

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

nameusersystemelapsed
HmdbMetabolitesConn2.1360.6722.967
HmdbMetabolitesEntry0.3760.0220.420