Back to Multiple platform build/check report for BioC 3.19:   simplified   long
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This page was generated on 2024-06-25 17:39 -0400 (Tue, 25 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4760
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4494
merida1macOS 12.7.4 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4508
kjohnson1macOS 13.6.6 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4466
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 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-06-23 14:00 -0400 (Sun, 23 Jun 2024)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_19
git_last_commit: a7f41b2
git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    ERROR    OK  
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    ERROR    OK  
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

CHECK results for biodbHmdb on nebbiolo1

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: 1.10.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz
StartedAt: 2024-06-23 21:03:55 -0400 (Sun, 23 Jun 2024)
EndedAt: 2024-06-23 21:04:44 -0400 (Sun, 23 Jun 2024)
EllapsedTime: 49.1 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
  EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
  EntryMaker.hpp:22:14: warning:   ‘bool EntryMaker::closed’ [-Wreorder]
  EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
   23 |         TagDetector accession_tag;
      |                     ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning:   ‘bool EntryMaker::closed’ [-Wreorder]
   22 |         bool closed;
      |              ^~~~~~
EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
    5 | EntryMaker::EntryMaker() :
      | ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/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 -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 [2024-06-23 21:04:29.031][biodb::testContext]
biodb.INFO [2024-06-23 21:04:29.033][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:29.034][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-06-23 21:04:29.035][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:29.036][biodb::testContext]
biodb.INFO [2024-06-23 21:04:29.038][biodb::testThat]
biodb.INFO [2024-06-23 21:04:29.039][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-06-23 21:04:29.040][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:29.040][biodb::testThat]
biodb.INFO [2024-06-23 21:04:29.125][biodb::testContext]
biodb.INFO [2024-06-23 21:04:29.126][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:29.127][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-23 21:04:29.128][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:29.129][biodb::testContext]
biodb.INFO [2024-06-23 21:04:29.137][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:29.139][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:29.146][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:29.154][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-23 21:04:29.155][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.159][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-23 21:04:29.175][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.179][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-23 21:04:29.180][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.183][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-23 21:04:29.184][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-23 21:04:29.185][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-23 21:04:29.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.193][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-23 21:04:29.194][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-23 21:04:29.196][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.199][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-23 21:04:29.200][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-23 21:04:29.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.203][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[2024-06-23 21:04:29.204][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-23 21:04:29.205][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-23 21:04:29.206][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-23 21:04:29.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.210][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-23 21:04:29.211][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.215][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-23 21:04:29.216][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-23 21:04:29.217][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-23 21:04:29.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.220][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:29.221][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-23 21:04:29.223][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-23 21:04:29.224][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-23 21:04:29.225][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-23 21:04:29.226][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-23 21:04:29.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.229][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-23 21:04:29.230][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-23 21:04:29.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.234][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-23 21:04:29.235][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-23 21:04:29.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.239][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-23 21:04:29.240][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-23 21:04:29.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.244][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-23 21:04:29.245][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-23 21:04:29.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.248][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[2024-06-23 21:04:29.249][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-23 21:04:29.250][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-23 21:04:29.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.254][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:29.255][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-23 21:04:29.259][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-23 21:04:29.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.263][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-23 21:04:29.264][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-23 21:04:29.265][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-23 21:04:29.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.272][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-23 21:04:29.310][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.326][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-23 21:04:29.328][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.329][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:29.330][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.331][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.332][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.333][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.334][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:29.347][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:29.348][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.349][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-23 21:04:29.350][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:29.351][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.352][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.353][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:29.353][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:29.353][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:29.353][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:29.353][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:29.354][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:29.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:29.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.359][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.361][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.363][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.364][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.365][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.366][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-23 21:04:29.368][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.369][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:29.370][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:29.372][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.373][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.374][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.375][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.376][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:29.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:29.378][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.379][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-23 21:04:29.380][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:29.381][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.382][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.383][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:29.383][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:29.383][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:29.383][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:29.383][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:29.384][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:29.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.386][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.387][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:29.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.391][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.393][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.393][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.394][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.395][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-23 21:04:29.397][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.398][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-23 21:04:29.399][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.400][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:29.401][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.402][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.403][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.404][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:29.405][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:29.406][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.407][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-23 21:04:29.408][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:29.409][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.410][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.411][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.412][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:29.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.414][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:29.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.416][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.417][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.418][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.419][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.420][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.421][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.422][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.423][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-23 21:04:29.424][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.425][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:29.426][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.427][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:29.428][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.429][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.430][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.431][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.432][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:29.433][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:29.434][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.435][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-23 21:04:29.436][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:29.437][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.437][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.438][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.439][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:29.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.442][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:29.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.444][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.445][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.446][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.447][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.448][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.449][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.453][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:29.454][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.467][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[2024-06-23 21:04:29.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.471][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[2024-06-23 21:04:29.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.484][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[2024-06-23 21:04:29.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.509][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[2024-06-23 21:04:29.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.530][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-23 21:04:29.535][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-23 21:04:29.537][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-23 21:04:29.538][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-23 21:04:29.540][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-23 21:04:29.541][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:29.542][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:29.544][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:29.545][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-23 21:04:29.546][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:29.547][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:29.549][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-23 21:04:29.550][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:29.551][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:29.553][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-23 21:04:29.554][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:29.555][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-23 21:04:29.557][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-23 21:04:29.558][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-23 21:04:29.559][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-23 21:04:29.561][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-23 21:04:29.562][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-23 21:04:29.563][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-23 21:04:29.564][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-23 21:04:29.566][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-23 21:04:29.567][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-23 21:04:29.568][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-23 21:04:29.570][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-23 21:04:29.571][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-23 21:04:29.572][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-23 21:04:29.573][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-23 21:04:29.575][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-23 21:04:29.576][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-23 21:04:29.577][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-23 21:04:29.579][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-23 21:04:29.580][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-23 21:04:29.581][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-23 21:04:29.583][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-23 21:04:29.584][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-23 21:04:29.585][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-23 21:04:29.586][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-23 21:04:29.588][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-23 21:04:29.589][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-23 21:04:29.590][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-23 21:04:29.592][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-23 21:04:29.593][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-23 21:04:29.594][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-23 21:04:29.596][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-23 21:04:29.597][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-23 21:04:29.598][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-23 21:04:29.600][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-23 21:04:29.601][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-23 21:04:29.602][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-23 21:04:29.604][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-23 21:04:29.605][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-23 21:04:29.606][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-23 21:04:29.607][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-23 21:04:29.609][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-23 21:04:29.610][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-23 21:04:29.611][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-23 21:04:29.613][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-23 21:04:29.614][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-23 21:04:29.615][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-23 21:04:29.616][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-23 21:04:29.618][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-23 21:04:29.619][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-23 21:04:29.620][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-23 21:04:29.622][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-23 21:04:29.623][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-23 21:04:29.624][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-23 21:04:29.626][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-23 21:04:29.627][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-23 21:04:29.628][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-23 21:04:29.629][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-23 21:04:29.631][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-23 21:04:29.632][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-23 21:04:29.633][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-23 21:04:29.635][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-23 21:04:29.636][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-23 21:04:29.637][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-23 21:04:29.638][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-23 21:04:29.640][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-23 21:04:29.641][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-23 21:04:29.647][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-23 21:04:29.648][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:29.652][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:29.652][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.654][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.655][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[2024-06-23 21:04:29.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.735][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.DEBUG[2024-06-23 21:04:29.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:29.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:29.767][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:29.776][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:29.778][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.779][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.780][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.781][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:29.782][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.783][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-23 21:04:29.784][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.785][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.786][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-23 21:04:29.787][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:29.788][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.789][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-23 21:04:29.790][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-23 21:04:29.791][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-23 21:04:29.792][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:29.793][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:29.793][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-23 21:04:29.793][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-23 21:04:29.794][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-23 21:04:29.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.797][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:29.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:29.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:29.800][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:29.801][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:29.801][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-23 21:04:29.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.803][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:29.804][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:29.810][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-23 21:04:29.811][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:29.813][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:29.815][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:29.816][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:29.841][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:29.843][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-23 21:04:29.847][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:29.852][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:29.856][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:29.857][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:29.859][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-23 21:04:29.900][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-23 21:04:29.902][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:29.902][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-23 21:04:29.903][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:29.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:29.905][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-23 21:04:29.905][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-23 21:04:29.907][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:29.924][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:29.925][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:29.926][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:29.928][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:29.929][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:29.930][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-23 21:04:29.939][biodb::testThat]
biodb.INFO [2024-06-23 21:04:29.940][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-23 21:04:29.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:29.942][biodb::testThat]
biodb.TRACE[2024-06-23 21:04:29.946][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-06-23 21:04:29.948][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:29.951][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:29.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:29.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:29.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:29.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:29.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:29.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:29.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:29.981][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:29.983][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:29.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:29.985][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:29.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:29.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.001][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.002][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.029][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.034][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.035][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.038][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.042][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.043][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.064][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.065][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.072][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.073][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.076][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.080][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.081][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.084][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.088][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.089][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.092][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.096][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.097][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.100][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.104][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.105][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.107][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.112][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.113][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.114][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.135][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.136][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.143][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.144][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.146][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.151][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.152][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.159][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:30.160][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.163][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:30.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.213][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.217][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.225][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.232][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:30.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.259][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.266][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.274][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.277][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.281][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.293][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.296][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.300][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.344][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.347][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.378][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.381][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.385][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.389][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.393][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.396][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.411][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:30.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.426][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:30.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:30.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.471][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.475][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.482][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:30.508][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-23 21:04:30.511][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:30.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:30.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.514][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:30.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:30.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.518][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:30.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:30.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.522][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:30.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:30.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.548][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.578][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:30.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.612][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.614][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:30.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:30.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.626][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.630][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.634][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.637][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.638][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.641][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.662][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.663][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:30.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.676][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.680][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.688][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.688][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.691][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:30.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:30.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.735][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.745][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.746][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:30.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.767][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.768][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.770][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:30.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:30.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.785][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.793][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.794][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.796][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:30.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:30.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.818][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.819][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.832][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.836][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.840][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.843][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.844][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.847][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:30.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:30.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.898][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.899][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:30.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.913][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.924][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.925][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.927][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.928][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:30.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.949][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.950][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.952][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:30.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.976][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:30.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:30.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:30.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:30.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:30.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.000][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.001][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.033][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.045][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.049][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.056][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.057][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.060][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.071][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.072][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.078][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.079][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.084][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.085][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.087][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.098][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.099][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.101][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.105][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.106][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.108][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.112][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.113][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.119][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.120][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.121][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.125][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.126][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.132][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.133][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.135][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.141][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.150][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.151][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.153][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.156][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.157][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.163][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.164][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.170][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.172][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.176][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.177][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.183][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.184][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.191][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.193][ef$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:31.199][biodb::testThat]
biodb.INFO [2024-06-23 21:04:31.200][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-23 21:04:31.201][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:31.202][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:31.215][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-23 21:04:31.222][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:31.227][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.228][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:31.230][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-23 21:04:31.231][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-23 21:04:31.233][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-23 21:04:31.234][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:31.257][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:31.258][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:31.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:31.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:31.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:31.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:31.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:31.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:31.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:31.272][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.273][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.275][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.285][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.286][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.288][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.289][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.293][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.294][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.297][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.301][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.302][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.304][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.305][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.312][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.317][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.318][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.320][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.325][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.328][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.333][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.334][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.337][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.340][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.341][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.343][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.348][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.349][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.351][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.352][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.356][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.357][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.359][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.360][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.364][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.365][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.367][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.373][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.381][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.388][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.389][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.391][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.396][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.397][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.399][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.403][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.404][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.406][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.411][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:31.416][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.419][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:31.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.434][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.438][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.441][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:31.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.445][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.453][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:31.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:31.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.483][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:31.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.490][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.494][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.498][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:31.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:31.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.513][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.517][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:31.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:31.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:31.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:31.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.561][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.565][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:31.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.595][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.602][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:31.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.606][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.610][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.614][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:31.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.621][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.625][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:31.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:31.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.628][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:31.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.643][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:31.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:31.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.670][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.683][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:31.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:31.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:31.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.709][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-23 21:04:31.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-23 21:04:31.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-23 21:04:31.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-23 21:04:31.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-23 21:04:31.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-23 21:04:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-23 21:04:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:31.727][biodb::testThat]
biodb.INFO [2024-06-23 21:04:31.728][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-23 21:04:31.729][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:31.730][biodb::testThat]
biodb.TRACE[2024-06-23 21:04:31.733][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.734][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.736][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.737][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-06-23 21:04:31.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.775][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-06-23 21:04:31.776][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-23 21:04:31.777][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-23 21:04:31.778][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-23 21:04:31.780][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.781][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.782][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:31.784][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.785][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:31.786][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:31.787][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:31.788][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:31.789][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:31.790][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:31.791][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:31.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.812][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:31.813][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:31.814][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-23 21:04:31.824][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.825][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.827][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.828][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-06-23 21:04:31.839][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.847][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.853][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[2024-06-23 21:04:31.904][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-23 21:04:31.905][private$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[2024-06-23 21:04:31.906][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-06-23 21:04:31.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.926][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:31.928][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:31.928][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:31.947][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:31.949][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:31.951][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:31.952][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:31.954][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:31.955][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:31.958][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.964][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.970][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:31.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:31.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:31.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:31.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:31.982][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:31.984][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:31.985][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-23 21:04:32.003][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.005][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.008][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:32.010][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-06-23 21:04:32.027][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.034][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.040][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:32.050][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-06-23 21:04:32.053][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-06-23 21:04:32.054][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-23 21:04:32.055][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-23 21:04:32.058][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.060][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.062][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:32.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.066][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:32.068][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:32.069][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:32.071][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:32.072][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:32.073][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:32.074][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:32.076][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.080][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.084][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.089][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:32.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:32.093][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:32.094][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:32.095][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-06-23 21:04:32.112][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.113][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-23 21:04:32.114][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:32.115][biodb::testThat]
biodb.TRACE[2024-06-23 21:04:32.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:32.145][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-23 21:04:32.146][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-23 21:04:32.147][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-23 21:04:32.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.150][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.152][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:32.153][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:32.154][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:32.155][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:32.156][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:32.157][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:32.158][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:32.159][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:32.160][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:32.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:32.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:32.176][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:32.177][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-06-23 21:04:32.190][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.191][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-23 21:04:32.192][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:32.193][biodb::testThat]
biodb.TRACE[2024-06-23 21:04:32.211][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.215][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.219][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:32.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:32.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:32.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:32.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-23 21:04:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.277][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:32.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-23 21:04:32.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:32.280][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:32.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-23 21:04:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:32.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:32.289][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.290][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-23 21:04:32.291][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:32.292][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.299][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.300][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-23 21:04:32.300][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:32.301][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.308][biodb::testThat]
biodb.INFO [2024-06-23 21:04:32.309][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-23 21:04:32.310][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:32.311][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:32.314][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-06-23 21:04:33.291][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-06-23 21:04:33.380][biodb::testThat]
biodb.INFO [2024-06-23 21:04:33.381][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-23 21:04:33.383][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:33.384][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:33.718][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-06-23 21:04:33.750][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:33.752][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:33.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.754][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.755][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:33.756][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:33.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.759][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:33.761][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:33.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.763][ef$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:33.765][biodb::testThat]
biodb.INFO [2024-06-23 21:04:33.766][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-06-23 21:04:33.767][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:33.768][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:33.770][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-23 21:04:33.834][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:33.836][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:33.837][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:33.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-23 21:04:33.858][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-23 21:04:33.859][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-23 21:04:33.861][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:33.862][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:33.864][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:33.865][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:33.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:33.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:33.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:33.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:33.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:33.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:33.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:33.880][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:33.923][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-23 21:04:33.924][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-23 21:04:33.942][biodb::testThat]
biodb.INFO [2024-06-23 21:04:33.943][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-23 21:04:33.944][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:33.945][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:33.954][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-06-23 21:04:33.955][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-06-23 21:04:33.956][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:33.958][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:33.960][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:33.962][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-06-23 21:04:33.963][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-23 21:04:33.965][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-23 21:04:33.966][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:33.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:33.969][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:33.970][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:33.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:33.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:33.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:33.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:33.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:33.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:33.981][FUN] Functions in observer BiodbConfig: [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[2024-06-23 21:04:33.983][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:33.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:33.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:33.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:33.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:34.054][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-23 21:04:34.055][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-23 21:04:34.056][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-06-23 21:04:34.069][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.070][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-06-23 21:04:34.071][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:34.072][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.094][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.095][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-06-23 21:04:34.096][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:34.097][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:34.100][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.101][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.103][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:34.104][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.105][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:34.107][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:34.108][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:34.109][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:34.110][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-06-23 21:04:34.117][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.119][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-06-23 21:04:34.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:34.120][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:34.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.124][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.126][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:34.127][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.128][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:34.130][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:34.131][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:34.132][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:34.133][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-06-23 21:04:34.141][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:34.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:34.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.145][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.146][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:34.147][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:34.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.149][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.150][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.151][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.153][ef$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:34.154][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-23 21:04:34.155][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-23 21:04:34.171][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-23 21:04:34.172][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-23 21:04:34.173][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.175][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.177][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.178][FUN] Functions in observer BiodbConfig: [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 [2024-06-23 21:04:34.182][biodb::testContext]
biodb.INFO [2024-06-23 21:04:34.183][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:34.184][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-06-23 21:04:34.185][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:34.186][biodb::testContext]
biodb.INFO [2024-06-23 21:04:34.190][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:34.192][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:34.196][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:34.197][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-23 21:04:34.198][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.202][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-23 21:04:34.203][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.207][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-23 21:04:34.208][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.212][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-23 21:04:34.213][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-23 21:04:34.214][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-23 21:04:34.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.217][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-23 21:04:34.218][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-23 21:04:34.220][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.223][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-23 21:04:34.224][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-23 21:04:34.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.227][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.DEBUG[2024-06-23 21:04:34.228][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-23 21:04:34.229][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-23 21:04:34.230][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-23 21:04:34.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.234][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-23 21:04:34.235][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.239][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-23 21:04:34.240][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-23 21:04:34.241][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-23 21:04:34.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.245][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:34.246][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-23 21:04:34.247][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-23 21:04:34.248][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-23 21:04:34.249][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-23 21:04:34.250][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-23 21:04:34.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.254][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-23 21:04:34.255][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-23 21:04:34.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.259][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-23 21:04:34.260][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-23 21:04:34.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.264][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-23 21:04:34.265][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-23 21:04:34.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.268][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-23 21:04:34.270][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-23 21:04:34.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.273][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-23 21:04:34.274][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-23 21:04:34.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.285][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:34.287][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-23 21:04:34.291][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-23 21:04:34.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.295][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-23 21:04:34.296][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-23 21:04:34.297][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-23 21:04:34.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.301][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-23 21:04:34.303][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.304][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-23 21:04:34.305][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.306][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:34.307][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.308][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.309][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.310][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.311][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:34.312][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:34.313][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.314][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-23 21:04:34.315][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:34.317][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.318][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.319][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:34.319][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:34.319][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:34.319][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:34.319][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:34.320][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:34.321][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.322][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.323][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:34.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.326][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.327][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.328][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.329][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.330][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.331][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.332][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-23 21:04:34.334][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.335][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:34.336][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.337][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:34.338][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.350][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.353][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.355][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.356][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:34.358][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:34.360][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.362][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-23 21:04:34.363][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:34.365][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.366][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.368][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:34.368][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:34.368][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:34.368][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:34.368][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:34.369][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:34.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.374][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:34.375][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.377][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.378][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.380][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.381][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.383][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.384][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.385][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.388][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-23 21:04:34.391][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.393][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-23 21:04:34.394][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.395][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:34.397][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.398][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.400][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.401][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.403][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:34.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:34.405][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.407][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-23 21:04:34.408][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:34.410][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.411][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.413][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.414][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:34.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.417][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.418][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:34.419][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.424][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.426][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.427][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.428][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.429][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.430][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-23 21:04:34.432][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.452][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:34.454][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:34.457][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.458][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.459][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.460][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.461][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:34.462][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:34.463][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.464][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-23 21:04:34.466][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:34.467][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.468][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.469][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.470][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:34.471][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.473][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:34.474][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.475][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.476][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.477][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.478][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.479][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.480][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.481][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.483][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:34.484][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.504][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[2024-06-23 21:04:34.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.570][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-23 21:04:34.571][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-23 21:04:34.573][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-23 21:04:34.574][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-23 21:04:34.575][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-23 21:04:34.577][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:34.578][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:34.579][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:34.581][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-23 21:04:34.582][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:34.583][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:34.585][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-23 21:04:34.586][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:34.588][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:34.589][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-23 21:04:34.591][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:34.592][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-23 21:04:34.593][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-23 21:04:34.595][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-23 21:04:34.596][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-23 21:04:34.597][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-23 21:04:34.599][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-23 21:04:34.600][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-23 21:04:34.601][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-23 21:04:34.603][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-23 21:04:34.604][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-23 21:04:34.605][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-23 21:04:34.607][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-23 21:04:34.608][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-23 21:04:34.609][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-23 21:04:34.611][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-23 21:04:34.612][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-23 21:04:34.614][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-23 21:04:34.615][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-23 21:04:34.616][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-23 21:04:34.618][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-23 21:04:34.619][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-23 21:04:34.621][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-23 21:04:34.622][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-23 21:04:34.623][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-23 21:04:34.625][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-23 21:04:34.626][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-23 21:04:34.628][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-23 21:04:34.629][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-23 21:04:34.631][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-23 21:04:34.632][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-23 21:04:34.633][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-23 21:04:34.635][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-23 21:04:34.636][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-23 21:04:34.638][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-23 21:04:34.639][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-23 21:04:34.640][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-23 21:04:34.642][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-23 21:04:34.643][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-23 21:04:34.645][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-23 21:04:34.646][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-23 21:04:34.648][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-23 21:04:34.649][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-23 21:04:34.650][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-23 21:04:34.652][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-23 21:04:34.653][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-23 21:04:34.655][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-23 21:04:34.656][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-23 21:04:34.657][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-23 21:04:34.659][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-23 21:04:34.660][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-23 21:04:34.661][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-23 21:04:34.663][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-23 21:04:34.664][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-23 21:04:34.666][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-23 21:04:34.673][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-23 21:04:34.674][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-23 21:04:34.676][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-23 21:04:34.677][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-23 21:04:34.679][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-23 21:04:34.680][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-23 21:04:34.681][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-23 21:04:34.683][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-23 21:04:34.684][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-23 21:04:34.685][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-23 21:04:34.687][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-23 21:04:34.688][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-23 21:04:34.689][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-23 21:04:34.691][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-23 21:04:34.693][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:34.694][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:34.695][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.696][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.722][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[2024-06-23 21:04:34.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.728][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[2024-06-23 21:04:34.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.735][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.DEBUG[2024-06-23 21:04:34.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:34.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:34.811][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:34.812][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:34.814][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.815][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.816][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.817][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:34.818][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.819][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-23 21:04:34.820][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.821][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.822][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-23 21:04:34.823][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:34.824][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.825][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-23 21:04:34.826][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-23 21:04:34.827][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-23 21:04:34.828][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:34.829][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:34.829][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-23 21:04:34.829][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-23 21:04:34.830][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-23 21:04:34.831][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.833][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:34.834][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:34.835][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:34.836][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:34.837][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:34.837][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-23 21:04:34.838][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.839][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.840][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:34.841][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:34.842][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-23 21:04:34.844][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:34.846][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:34.847][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:34.849][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:34.852][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:34.853][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-23 21:04:34.855][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:34.856][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:34.857][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:34.858][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:34.860][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-23 21:04:34.861][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-23 21:04:34.862][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:34.862][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-23 21:04:34.863][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:34.864][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:34.865][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-23 21:04:34.866][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-23 21:04:34.867][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:34.868][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:34.869][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:34.871][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:34.872][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:34.873][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:34.874][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-23 21:04:34.876][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.877][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-06-23 21:04:34.878][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:34.878][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:34.883][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.884][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.885][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:34.892][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.893][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:34.895][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:34.896][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:34.897][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:34.897][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:34.900][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-06-23 21:04:34.905][biodb::testThat]
biodb.INFO [2024-06-23 21:04:34.906][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-06-23 21:04:34.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:34.908][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:34.910][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-23 21:04:34.911][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:34.912][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:34.914][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:34.916][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-23 21:04:34.917][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-23 21:04:34.919][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-23 21:04:34.920][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:34.921][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:34.922][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:34.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:34.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:34.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:34.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:34.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:34.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:34.933][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.TRACE[2024-06-23 21:04:34.937][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:34.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:34.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.945][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.946][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.949][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:34.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.954][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:34.955][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:34.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:34.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.962][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:34.963][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:34.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:34.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:34.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:34.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.974][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.980][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:34.981][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:34.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:34.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:34.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:34.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:34.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:34.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:34.997][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:34.998][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:34.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.000][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.001][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.011][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.012][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.019][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.020][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.022][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.027][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:35.028][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:35.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.031][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:35.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.035][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:35.036][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:35.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.038][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:35.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:35.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.044][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.045][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.060][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.061][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.069][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:35.070][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:35.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:35.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.077][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:35.078][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.086][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:35.087][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.107][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.111][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.120][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:35.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.128][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:35.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.171][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:35.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.183][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.191][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:35.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:35.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:35.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:35.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:35.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:35.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:35.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:35.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:35.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.251][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.255][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:35.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:35.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.303][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:35.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:35.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:35.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:35.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.320][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:35.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.341][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:35.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:35.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:35.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.365][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.369][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.377][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:35.405][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-23 21:04:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:35.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:35.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:35.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:35.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-23 21:04:35.424][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-23 21:04:35.426][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-23 21:04:35.427][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-23 21:04:35.428][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-23 21:04:35.428][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.430][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.432][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-23 21:04:35.442][biodb::testContext]
biodb.INFO [2024-06-23 21:04:35.444][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:35.445][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-06-23 21:04:35.446][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-23 21:04:35.447][biodb::testContext]
biodb.INFO [2024-06-23 21:04:35.450][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:35.452][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:35.456][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:35.457][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-23 21:04:35.458][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.461][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-23 21:04:35.462][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.466][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-23 21:04:35.467][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.471][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-23 21:04:35.472][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-23 21:04:35.473][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-23 21:04:35.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.476][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-23 21:04:35.477][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-23 21:04:35.478][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.482][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-23 21:04:35.483][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-23 21:04:35.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.486][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-23 21:04:35.487][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-23 21:04:35.488][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-23 21:04:35.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.493][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-23 21:04:35.494][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.499][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-23 21:04:35.500][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-23 21:04:35.502][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-23 21:04:35.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.505][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:35.506][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-23 21:04:35.508][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-23 21:04:35.509][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-23 21:04:35.510][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-23 21:04:35.511][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-23 21:04:35.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.515][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-23 21:04:35.516][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-23 21:04:35.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.519][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[2024-06-23 21:04:35.520][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-23 21:04:35.521][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-23 21:04:35.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.525][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-23 21:04:35.526][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-23 21:04:35.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.529][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[2024-06-23 21:04:35.530][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-23 21:04:35.531][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-23 21:04:35.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.535][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-23 21:04:35.536][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-23 21:04:35.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.540][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-23 21:04:35.541][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-23 21:04:35.544][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-23 21:04:35.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.548][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-23 21:04:35.549][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-23 21:04:35.550][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-23 21:04:35.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.561][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-23 21:04:35.563][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.564][self$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[2024-06-23 21:04:35.565][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.566][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:35.567][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.567][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.568][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.569][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.570][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:35.571][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:35.572][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.573][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-23 21:04:35.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:35.575][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.576][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.577][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:35.577][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:35.577][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:35.577][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:35.577][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:35.578][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:35.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.581][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:35.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.583][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.584][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.585][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.586][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:35.586][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:35.587][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.588][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.590][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-23 21:04:35.592][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.594][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:35.595][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.596][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:35.597][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.598][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.599][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.600][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.601][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:35.602][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:35.604][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.605][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-23 21:04:35.606][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:35.607][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.608][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.609][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:35.609][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-23 21:04:35.609][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-23 21:04:35.609][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-23 21:04:35.609][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-23 21:04:35.610][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:35.611][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.612][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.613][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:35.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.615][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.616][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.617][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.618][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:35.619][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:35.620][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.621][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.623][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-23 21:04:35.624][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.625][self$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[2024-06-23 21:04:35.627][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:35.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.632][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.633][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-23 21:04:35.634][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:35.635][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.636][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-23 21:04:35.637][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:35.638][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.639][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.640][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.641][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:35.642][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.643][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.644][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:35.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.646][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.647][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.648][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:35.649][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:35.656][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.661][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.664][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-23 21:04:35.668][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.670][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-23 21:04:35.671][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.672][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:35.674][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.675][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.676][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.677][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.678][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-23 21:04:35.706][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:35.709][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.711][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-23 21:04:35.713][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:35.714][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.715][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:35.716][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.718][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-23 21:04:35.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.721][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:35.722][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:35.723][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:35.724][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:35.725][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.726][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:35.727][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:35.728][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:35.729][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:35.730][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:35.731][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.752][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[2024-06-23 21:04:35.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.823][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-23 21:04:35.830][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-23 21:04:35.831][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-23 21:04:35.833][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-23 21:04:35.834][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-23 21:04:35.836][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:35.837][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:35.838][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:35.839][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-23 21:04:35.841][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:35.842][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:35.843][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-23 21:04:35.845][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-23 21:04:35.846][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-23 21:04:35.847][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-23 21:04:35.848][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:35.850][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-23 21:04:35.851][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-23 21:04:35.852][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-23 21:04:35.854][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-23 21:04:35.855][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-23 21:04:35.857][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-23 21:04:35.858][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-23 21:04:35.859][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-23 21:04:35.861][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-23 21:04:35.862][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-23 21:04:35.864][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-23 21:04:35.865][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-23 21:04:35.866][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-23 21:04:35.868][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-23 21:04:35.869][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-23 21:04:35.870][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-23 21:04:35.872][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-23 21:04:35.873][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-23 21:04:35.875][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-23 21:04:35.876][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-23 21:04:35.877][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-23 21:04:35.879][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-23 21:04:35.880][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-23 21:04:35.881][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-23 21:04:35.883][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-23 21:04:35.884][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-23 21:04:35.885][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-23 21:04:35.887][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-23 21:04:35.888][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-23 21:04:35.890][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-23 21:04:35.891][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-23 21:04:35.892][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-23 21:04:35.894][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-23 21:04:35.895][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-23 21:04:35.897][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-23 21:04:35.898][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-23 21:04:35.899][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-23 21:04:35.901][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-23 21:04:35.902][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-23 21:04:35.903][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-23 21:04:35.905][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-23 21:04:35.906][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-23 21:04:35.908][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-23 21:04:35.909][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-23 21:04:35.910][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-23 21:04:35.912][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-23 21:04:35.913][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-23 21:04:35.914][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-23 21:04:35.916][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-23 21:04:35.917][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-23 21:04:35.919][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-23 21:04:35.920][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-23 21:04:35.921][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-23 21:04:35.923][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-23 21:04:35.931][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-23 21:04:35.933][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-23 21:04:35.934][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-23 21:04:35.936][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-23 21:04:35.937][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-23 21:04:35.938][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-23 21:04:35.940][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-23 21:04:35.941][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-23 21:04:35.942][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-23 21:04:35.944][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-23 21:04:35.945][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-23 21:04:35.946][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-23 21:04:35.948][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-23 21:04:35.949][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-23 21:04:35.951][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-23 21:04:35.952][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-23 21:04:35.953][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.955][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.980][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[2024-06-23 21:04:35.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:35.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:35.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:35.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:35.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:35.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:35.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:35.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.004][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[2024-06-23 21:04:36.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-23 21:04:36.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.065][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-23 21:04:36.066][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:36.068][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:36.069][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-23 21:04:36.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:36.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-23 21:04:36.072][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:36.073][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-23 21:04:36.074][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:36.075][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-23 21:04:36.076][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-23 21:04:36.077][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-23 21:04:36.078][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:36.079][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-23 21:04:36.080][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-23 21:04:36.081][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-23 21:04:36.082][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-23 21:04:36.083][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-23 21:04:36.083][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-23 21:04:36.083][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-23 21:04:36.084][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-23 21:04:36.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:36.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:36.087][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-23 21:04:36.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-23 21:04:36.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-23 21:04:36.089][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-23 21:04:36.090][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:36.090][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-23 21:04:36.091][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:36.092][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:36.093][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-23 21:04:36.094][self$setPropertyValue]
biodb.DEBUG[2024-06-23 21:04:36.095][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-23 21:04:36.097][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-23 21:04:36.098][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-23 21:04:36.100][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-23 21:04:36.101][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-23 21:04:36.104][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:36.105][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-23 21:04:36.107][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:36.108][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:36.109][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:36.110][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:36.111][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-23 21:04:36.112][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-23 21:04:36.113][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-23 21:04:36.113][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-23 21:04:36.114][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-23 21:04:36.115][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-23 21:04:36.116][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-23 21:04:36.117][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-23 21:04:36.118][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-23 21:04:36.119][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:36.120][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:36.121][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:36.123][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-23 21:04:36.124][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-23 21:04:36.125][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-23 21:04:36.126][biodb::testThat]
biodb.INFO [2024-06-23 21:04:36.132][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-06-23 21:04:36.133][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-23 21:04:36.134][biodb::testThat]
biodb.DEBUG[2024-06-23 21:04:36.136][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-23 21:04:36.137][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-23 21:04:36.138][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-23 21:04:36.141][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:36.142][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:36.144][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:36.145][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:36.146][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:36.147][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:36.148][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:36.149][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:36.150][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:36.151][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:36.152][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-06-23 21:04:36.154][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-23 21:04:36.155][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:36.156][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:36.158][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:36.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-23 21:04:36.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-23 21:04:36.162][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-23 21:04:36.163][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:36.165][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:36.166][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:36.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:36.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:36.180][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.183][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.188][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.189][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.191][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.192][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.196][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.197][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.199][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.200][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.204][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.205][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.208][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.220][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.221][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.229][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.241][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.242][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.249][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.250][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.252][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.257][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.258][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.260][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.265][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.266][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.269][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.273][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.274][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.276][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.284][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.289][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.290][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.297][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.305][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.306][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.309][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.313][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.317][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.320][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:36.321][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.323][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.349][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.353][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.360][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.364][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.413][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.417][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.420][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.424][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.428][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.432][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.481][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.485][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.489][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.519][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.523][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.527][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.534][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.538][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.542][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.556][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:36.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.571][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:36.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.594][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.598][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.606][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:36.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:36.632][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-23 21:04:36.633][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.637][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.645][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:36.654][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:36.655][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:36.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:36.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:36.667][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-23 21:04:36.668][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-23 21:04:36.669][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:36.671][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-23 21:04:36.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-23 21:04:36.674][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-23 21:04:36.675][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-23 21:04:36.676][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-23 21:04:36.677][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-23 21:04:36.679][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-23 21:04:36.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:36.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:36.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:36.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:36.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:36.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:36.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:36.692][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.700][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.701][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.705][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:36.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.709][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.710][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.713][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.717][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.718][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.721][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.728][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.733][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.734][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.741][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.744][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.746][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.750][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.751][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.752][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.762][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.764][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.771][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.772][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.775][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.779][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.787][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.795][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.796][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.811][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:36.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.819][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.820][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.822][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.823][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:36.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:36.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.835][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:36.836][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.838][ef$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-23 21:04:36.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:36.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:36.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.855][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.859][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.862][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-23 21:04:36.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.872][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.876][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.879][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-23 21:04:36.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-23 21:04:36.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-23 21:04:36.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.914][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-23 21:04:36.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.918][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.922][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.926][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-23 21:04:36.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-23 21:04:36.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.945][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-23 21:04:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-23 21:04:36.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-23 21:04:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-23 21:04:36.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:36.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:36.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:36.997][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:36.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:37.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-23 21:04:37.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-23 21:04:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.027][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-23 21:04:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.039][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.043][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.046][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-23 21:04:37.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:37.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:37.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:37.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:37.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-23 21:04:37.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-23 21:04:37.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.062][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:37.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-23 21:04:37.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-23 21:04:37.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-23 21:04:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-23 21:04:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.108][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-23 21:04:37.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-23 21:04:37.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-23 21:04:37.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.145][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-23 21:04:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.154][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.158][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.162][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:37.163][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:37.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:37.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:37.183][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-23 21:04:37.184][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-23 21:04:37.185][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-23 21:04:37.187][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.188][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.190][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:37.191][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.192][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:37.193][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:37.194][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:37.195][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:37.196][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:37.197][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:37.198][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:37.199][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.222][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.226][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:37.227][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:37.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:37.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:37.238][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.242][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.246][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.250][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.261][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.265][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-23 21:04:37.266][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:37.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:37.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-23 21:04:37.285][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-23 21:04:37.286][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-23 21:04:37.287][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-23 21:04:37.289][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.291][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.293][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-23 21:04:37.294][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-23 21:04:37.295][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-23 21:04:37.296][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-23 21:04:37.297][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-23 21:04:37.298][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-23 21:04:37.299][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-23 21:04:37.300][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-23 21:04:37.301][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-23 21:04:37.303][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.318][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.322][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.330][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-23 21:04:37.331][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-06-23 21:04:37.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:37.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-23 21:04:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.346][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.358][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-23 21:04:37.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-23 21:04:37.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-23 21:04:37.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-23 21:04:37.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-23 21:04:37.370][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-23 21:04:37.371][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-23 21:04:37.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-23 21:04:37.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.381][FUN] Functions in observer BiodbConfig: [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 [2024-06-23 21:04:37.388][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-23 21:04:37.396][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-23 21:04:37.397][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-23 21:04:37.398][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-23 21:04:37.399][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-23 21:04:37.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-23 21:04:37.401][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-23 21:04:37.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-23 21:04:37.403][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-23 21:04:37.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  8.686   0.463  10.277

Example timings